arXiv subjects

Bin Dong

Publications and source records attributed to Bin Dong.

At least 73 records · Page 4Linked to original sources

arXiv2024

Few-shot Named Entity Recognition via Superposition Concept Discrimination

Few-shot NER aims to identify entities of target types with only limited number of illustrative instances. Unfortunately, few-shot NER is severely challenged by the intrinsic precise generalization problem, i.e., it is hard to accurately determine the desired target type due to the ambiguity stemming from information deficiency. In this paper, we propose Superposition Concept Discriminator (SuperCD), which resolves the above challenge via an active learning paradigm. Specifically, a concept extractor is first introduced to identify superposition concepts from illustrative instances, with each concept corresponding to a possible generalization boundary. Then a superposition instance retriever is applied to retrieve corresponding instances of these superposition concepts from large-scale text corpus. Finally, annotators are asked to annotate the retrieved instances and these annotated instances together with original illustrative instances are used to learn FS-NER models. To this end, we learn a universal concept extractor and superposition instance retriever using a large-scale openly available knowledge bases. Experiments show that SuperCD can effectively identify superposition concepts from illustrative instances, retrieve superposition instances from large-scale corpus, and significantly improve the few-shot NER performance with minimal additional efforts.

cs.CL↗

arXiv2024

Latent assimilation with implicit neural representations for unknown dynamics

Data assimilation is crucial in a wide range of applications, but it often faces challenges such as high computational costs due to data dimensionality and incomplete understanding of underlying mechanisms. To address these challenges, this study presents a novel assimilation framework, termed Latent Assimilation with Implicit Neural Representations (LAINR). By introducing Spherical Implicit Neural Representations (SINR) along with a data-driven uncertainty estimator of the trained neural networks, LAINR enhances efficiency in assimilation process. Experimental results indicate that LAINR holds certain advantage over existing methods based on AutoEncoders, both in terms of accuracy and efficiency.

cs.LG↗

arXiv2024

Retentive or Forgetful? Diving into the Knowledge Memorizing Mechanism of Language Models

Memory is one of the most essential cognitive functions serving as a repository of world knowledge and episodes of activities. In recent years, large-scale pre-trained language models have shown remarkable memorizing ability. On the contrary, vanilla neural networks without pre-training have been long observed suffering from the catastrophic forgetting problem. To investigate such a retentive-forgetful contradiction and understand the memory mechanism of language models, we conduct thorough experiments by controlling the target knowledge types, the learning strategies and the learning schedules. We find that: 1) Vanilla language models are forgetful; 2) Pre-training leads to retentive language models; 3) Knowledge relevance and diversification significantly influence the memory formation. These conclusions are useful for understanding the abilities of pre-trained language models and shed light on designing and evaluating new learning and inference algorithms of language models.

cs.CL↗

arXiv2024

Meta-Auto-Decoder: A Meta-Learning Based Reduced Order Model for Solving Parametric Partial Differential Equations

Many important problems in science and engineering require solving the so-called parametric partial differential equations (PDEs), i.e., PDEs with different physical parameters, boundary conditions, shapes of computational domains, etc. Typical reduced order modeling techniques accelarate solution of the parametric PDEs by projecting them onto a linear trial manifold constructed in the offline stage. These methods often need a predefined mesh as well as a series of precomputed solution snapshots, andmay struggle to balance between efficiency and accuracy due to the limitation of the linear ansatz. Utilizing the nonlinear representation of neural networks, we propose Meta-Auto-Decoder (MAD) to construct a nonlinear trial manifold, whose best possible performance is measured theoretically by the decoder width. Based on the meta-learning concept, the trial manifold can be learned in a mesh-free and unsupervised way during the pre-training stage. Fast adaptation to new (possibly heterogeneous) PDE parameters is enabled by searching on this trial manifold, and optionally fine-tuning the trial manifold at the same time. Extensive numerical experiments show that the MAD method exhibits faster convergence speed without losing accuracy than other deep learning-based methods.

math.NA↗

arXiv2024

Analysis of a wavelet frame based two-scale model for enhanced edges

Image restoration is a class of important tasks that emerges from a wide range of scientific disciplines. It has been noticed that most practical images can be modeled as a composition from a sparse singularity set (edges) where the image contents or their gradients change drastically, and cartoon chunks in which a high degree of regularity is dominant. Enhancing edges while promoting regularity elsewhere has been an important criterion for successful restoration in many image classes. In this article, we present a wavelet frame based image restoration model that captures potential edges and facilitates the restoration procedure by a dedicated treatment both of singularity and of cartoon. Moreover, its geometric robustness is enhanced by exploiting subtle inter-scale information available in the coarse image. To substantiate our intuition, we prove that this model converges to one variant of the celebrated Mumford-Shah model when adequate asymptotic specifications are given.

math.FA↗

arXiv2023

Prompt Engineering Through the Lens of Optimal Control

Prompt Engineering (PE) has emerged as a critical technique for guiding Large Language Models (LLMs) in solving intricate tasks. Its importance is highlighted by its potential to significantly enhance the efficiency and effectiveness of human-machine interaction. As tasks grow increasingly complex, recent advanced PE methods have extended beyond the limitations of single-round interactions to embrace multi-round interactions, which allows for a deeper and more nuanced engagement with LLMs. In this paper, we propose an optimal control framework tailored for multi-round interactions with LLMs. This framework provides a unified mathematical structure that not only systematizes the existing PE methods but also sets the stage for rigorous analytical improvements. Furthermore, we extend this framework to include PE via ensemble methods and multi-agent collaboration, thereby enlarging the scope of applicability. By adopting an optimal control perspective, we offer fresh insights into existing PE methods and highlight theoretical challenges that warrant future research. Besides, our work lays a foundation for the development of more effective and interpretable PE methods.

cs.LG↗

arXiv2023

Large Language Models Illuminate a Progressive Pathway to Artificial Healthcare Assistant: A Review

With the rapid development of artificial intelligence, large language models (LLMs) have shown promising capabilities in mimicking human-level language comprehension and reasoning. This has sparked significant interest in applying LLMs to enhance various aspects of healthcare, ranging from medical education to clinical decision support. However, medicine involves multifaceted data modalities and nuanced reasoning skills, presenting challenges for integrating LLMs. This paper provides a comprehensive review on the applications and implications of LLMs in medicine. It begins by examining the fundamental applications of general-purpose and specialized LLMs, demonstrating their utilities in knowledge retrieval, research support, clinical workflow automation, and diagnostic assistance. Recognizing the inherent multimodality of medicine, the review then focuses on multimodal LLMs, investigating their ability to process diverse data types like medical imaging and EHRs to augment diagnostic accuracy. To address LLMs' limitations regarding personalization and complex clinical reasoning, the paper explores the emerging development of LLM-powered autonomous agents for healthcare. Furthermore, it summarizes the evaluation methodologies for assessing LLMs' reliability and safety in medical contexts. Overall, this review offers an extensive analysis on the transformative potential of LLMs in modern medicine. It also highlights the pivotal need for continuous optimizations and ethical oversight before these models can be effectively integrated into clinical practice. Visit https://github.com/mingze-yuan/Awesome-LLM-Healthcare for an accompanying GitHub repository containing latest papers.

cs.CL↗

arXiv2023

Improved Prognostic Prediction of Pancreatic Cancer Using Multi-Phase CT by Integrating Neural Distance and Texture-Aware Transformer

Pancreatic ductal adenocarcinoma (PDAC) is a highly lethal cancer in which the tumor-vascular involvement greatly affects the resectability and, thus, overall survival of patients. However, current prognostic prediction methods fail to explicitly and accurately investigate relationships between the tumor and nearby important vessels. This paper proposes a novel learnable neural distance that describes the precise relationship between the tumor and vessels in CT images of different patients, adopting it as a major feature for prognosis prediction. Besides, different from existing models that used CNNs or LSTMs to exploit tumor enhancement patterns on dynamic contrast-enhanced CT imaging, we improved the extraction of dynamic tumor-related texture features in multi-phase contrast-enhanced CT by fusing local and global features using CNN and transformer modules, further enhancing the features extracted across multi-phase CT images. We extensively evaluated and compared the proposed method with existing methods in the multi-center (n=4) dataset with 1,070 patients with PDAC, and statistical analysis confirmed its clinical effectiveness in the external test set consisting of three centers. The developed risk marker was the strongest predictor of overall survival among preoperative factors and it has the potential to be combined with established clinical factors to select patients at higher risk who might benefit from neoadjuvant therapy.

eess.IV↗

arXiv2023

Machine learning assisted exploration for affine Deligne-Lusztig varieties

This paper presents a novel, interdisciplinary study that leverages a Machine Learning (ML) assisted framework to explore the geometry of affine Deligne-Lusztig varieties (ADLV). The primary objective is to investigate the nonemptiness pattern, dimension and enumeration of irreducible components of ADLV. Our proposed framework demonstrates a recursive pipeline of data generation, model training, pattern analysis, and human examination, presenting an intricate interplay between ML and pure mathematical research. Notably, our data-generation process is nuanced, emphasizing the selection of meaningful subsets and appropriate feature sets. We demonstrate that this framework has a potential to accelerate pure mathematical research, leading to the discovery of new conjectures and promising research directions that could otherwise take significant time to uncover. We rediscover the virtual dimension formula and provide a full mathematical proof of a newly identified problem concerning a certain lower bound of dimension. Furthermore, we extend an open invitation to the readers by providing the source code for computing ADLV and the ML models, promoting further explorations. This paper concludes by sharing valuable experiences and highlighting lessons learned from this collaboration.

math.AG↗

arXiv2023

EDMAE: An Efficient Decoupled Masked Autoencoder for Standard View Identification in Pediatric Echocardiography

This paper introduces the Efficient Decoupled Masked Autoencoder (EDMAE), a novel self-supervised method for recognizing standard views in pediatric echocardiography. EDMAE introduces a new proxy task based on the encoder-decoder structure. The EDMAE encoder is composed of a teacher and a student encoder. The teacher encoder extracts the potential representation of the masked image blocks, while the student encoder extracts the potential representation of the visible image blocks. The loss is calculated between the feature maps output by the two encoders to ensure consistency in the latent representations they extract. EDMAE uses pure convolution operations instead of the ViT structure in the MAE encoder. This improves training efficiency and convergence speed. EDMAE is pre-trained on a large-scale private dataset of pediatric echocardiography using self-supervised learning, and then fine-tuned for standard view recognition. The proposed method achieves high classification accuracy in 27 standard views of pediatric echocardiography. To further verify the effectiveness of the proposed method, the authors perform another downstream task of cardiac ultrasound segmentation on the public dataset CAMUS. The experimental results demonstrate that the proposed method outperforms some popular supervised and recent self-supervised methods, and is more competitive on different downstream tasks.

eess.IV↗

arXiv2023

PROV-IO+: A Cross-Platform Provenance Framework for Scientific Data on HPC Systems

Data provenance, or data lineage, describes the life cycle of data. In scientific workflows on HPC systems, scientists often seek diverse provenance (e.g., origins of data products, usage patterns of datasets). Unfortunately, existing provenance solutions cannot address the challenges due to their incompatible provenance models and/or system implementations. In this paper, we analyze four representative scientific workflows in collaboration with the domain scientists to identify concrete provenance needs. Based on the first-hand analysis, we propose a provenance framework called PROV-IO+, which includes an I/O-centric provenance model for describing scientific data and the associated I/O operations and environments precisely. Moreover, we build a prototype of PROV-IO+ to enable end-to-end provenance support on real HPC systems with little manual effort. The PROV-IO+ framework can support both containerized and non-containerized workflows on different HPC platforms with flexibility in selecting various classes of provenance. Our experiments with realistic workflows show that PROV-IO+ can address the provenance needs of the domain scientists effectively with reasonable performance (e.g., less than 3.5% tracking overhead for most experiments). Moreover, PROV-IO+ outperforms a state-of-the-art system (i.e., ProvLake) in our experiments.

cs.DC↗

arXiv2023

Learning to simulate partially known spatio-temporal dynamics with trainable difference operators

Recently, using neural networks to simulate spatio-temporal dynamics has received a lot of attention. However, most existing methods adopt pure data-driven black-box models, which have limited accuracy and interpretability. By combining trainable difference operators with black-box models, we propose a new hybrid architecture explicitly embedded with partial prior knowledge of the underlying PDEs named PDE-Net++. Furthermore, we introduce two distinct options called the trainable flipping difference layer (TFDL) and the trainable dynamic difference layer (TDDL) for the difference operators. Numerous numerical experiments have demonstrated that PDE-Net++ has superior prediction accuracy and better extrapolation performance than black-box models.

cs.LG↗

arXiv2023

Cluster-Induced Mask Transformers for Effective Opportunistic Gastric Cancer Screening on Non-contrast CT Scans

Gastric cancer is the third leading cause of cancer-related mortality worldwide, but no guideline-recommended screening test exists. Existing methods can be invasive, expensive, and lack sensitivity to identify early-stage gastric cancer. In this study, we explore the feasibility of using a deep learning approach on non-contrast CT scans for gastric cancer detection. We propose a novel cluster-induced Mask Transformer that jointly segments the tumor and classifies abnormality in a multi-task manner. Our model incorporates learnable clusters that encode the texture and shape prototypes of gastric cancer, utilizing self- and cross-attention to interact with convolutional features. In our experiments, the proposed method achieves a sensitivity of 85.0% and specificity of 92.6% for detecting gastric tumors on a hold-out test set consisting of 100 patients with cancer and 148 normal. In comparison, two radiologists have an average sensitivity of 73.5% and specificity of 84.3%. We also obtain a specificity of 97.7% on an external test set with 903 normal cases. Our approach performs comparably to established state-of-the-art gastric cancer screening tools like blood testing and endoscopy, while also being more sensitive in detecting early-stage cancer. This demonstrates the potential of our approach as a novel, non-invasive, low-cost, and accurate method for opportunistic gastric cancer screening.

eess.IV↗

arXiv2023

Analysis of the Decoder Width for Parametric Partial Differential Equations

Recently, Meta-Auto-Decoder (MAD) was proposed as a novel reduced order model (ROM) for solving parametric partial differential equations (PDEs), and the best possible performance of this method can be quantified by the decoder width. This paper aims to provide a theoretical analysis related to the decoder width. The solution sets of several parametric PDEs are examined, and the upper bounds of the corresponding decoder widths are estimated. In addition to the elliptic and the parabolic equations on a fixed domain, we investigate the advection equations that present challenges for classical linear ROMs, as well as the elliptic equations with the computational domain shape as a variable PDE parameter. The resulting fast decay rates of the decoder widths indicate the promising potential of MAD in addressing these problems.

math.NA↗

arXiv2023

propnet: Propagating 2D Annotation to 3D Segmentation for Gastric Tumors on CT Scans

**Background:** Accurate 3D CT scan segmentation of gastric tumors is pivotal for diagnosis and treatment. The challenges lie in the irregular shapes, blurred boundaries of tumors, and the inefficiency of existing methods. **Purpose:** We conducted a study to introduce a model, utilizing human-guided knowledge and unique modules, to address the challenges of 3D tumor segmentation. **Methods:** We developed the PropNet framework, propagating radiologists' knowledge from 2D annotations to the entire 3D space. This model consists of a proposing stage for coarse segmentation and a refining stage for improved segmentation, using two-way branches for enhanced performance and an up-down strategy for efficiency. **Results:** With 98 patient scans for training and 30 for validation, our method achieves a significant agreement with manual annotation (Dice of 0.803) and improves efficiency. The performance is comparable in different scenarios and with various radiologists' annotations (Dice between 0.785 and 0.803). Moreover, the model shows improved prognostic prediction performance (C-index of 0.620 vs. 0.576) on an independent validation set of 42 patients with advanced gastric cancer. **Conclusions:** Our model generates accurate tumor segmentation efficiently and stably, improving prognostic performance and reducing high-throughput image reading workload. This model can accelerate the quantitative analysis of gastric tumors and enhance downstream task performance.

eess.IV↗

arXiv2023

Double Descent of Discrepancy: A Task-, Data-, and Model-Agnostic Phenomenon

In this paper, we studied two identically-trained neural networks (i.e. networks with the same architecture, trained on the same dataset using the same algorithm, but with different initialization) and found that their outputs discrepancy on the training dataset exhibits a "double descent" phenomenon. We demonstrated through extensive experiments across various tasks, datasets, and network architectures that this phenomenon is prevalent. Leveraging this phenomenon, we proposed a new early stopping criterion and developed a new method for data quality assessment. Our results show that a phenomenon-driven approach can benefit deep learning research both in theoretical understanding and practical applications.

cs.LG↗

arXiv2023

Unsupervised Image Denoising with Score Function

Though achieving excellent performance in some cases, current unsupervised learning methods for single image denoising usually have constraints in applications. In this paper, we propose a new approach which is more general and applicable to complicated noise models. Utilizing the property of score function, the gradient of logarithmic probability, we define a solving system for denoising. Once the score function of noisy images has been estimated, the denoised result can be obtained through the solving system. Our approach can be applied to multiple noise models, such as the mixture of multiplicative and additive noise combined with structured correlation. Experimental results show that our method is comparable when the noise model is simple, and has good performance in complicated cases where other methods are not applicable or perform poorly.

cs.CV↗

arXiv2023

Devil is in the Queries: Advancing Mask Transformers for Real-world Medical Image Segmentation and Out-of-Distribution Localization

Real-world medical image segmentation has tremendous long-tailed complexity of objects, among which tail conditions correlate with relatively rare diseases and are clinically significant. A trustworthy medical AI algorithm should demonstrate its effectiveness on tail conditions to avoid clinically dangerous damage in these out-of-distribution (OOD) cases. In this paper, we adopt the concept of object queries in Mask Transformers to formulate semantic segmentation as a soft cluster assignment. The queries fit the feature-level cluster centers of inliers during training. Therefore, when performing inference on a medical image in real-world scenarios, the similarity between pixels and the queries detects and localizes OOD regions. We term this OOD localization as MaxQuery. Furthermore, the foregrounds of real-world medical images, whether OOD objects or inliers, are lesions. The difference between them is less than that between the foreground and background, possibly misleading the object queries to focus redundantly on the background. Thus, we propose a query-distribution (QD) loss to enforce clear boundaries between segmentation targets and other regions at the query level, improving the inlier segmentation and OOD indication. Our proposed framework is tested on two real-world segmentation tasks, i.e., segmentation of pancreatic and liver tumors, outperforming previous state-of-the-art algorithms by an average of 7.39% on AUROC, 14.69% on AUPR, and 13.79% on FPR95 for OOD localization. On the other hand, our framework improves the performance of inlier segmentation by an average of 5.27% DSC when compared with the leading baseline nnUNet.

cs.CV↗