arXiv subjects

Carl Yang

Publications and source records attributed to Carl Yang.

At least 127 records · Page 7Linked to original sources

arXiv2024

Domain Specialization as the Key to Make Large Language Models Disruptive: A Comprehensive Survey

Large language models (LLMs) have significantly advanced the field of natural language processing (NLP), providing a highly useful, task-agnostic foundation for a wide range of applications. However, directly applying LLMs to solve sophisticated problems in specific domains meets many hurdles, caused by the heterogeneity of domain data, the sophistication of domain knowledge, the uniqueness of domain objectives, and the diversity of the constraints (e.g., various social norms, cultural conformity, religious beliefs, and ethical standards in the domain applications). Domain specification techniques are key to make large language models disruptive in many applications. Specifically, to solve these hurdles, there has been a notable increase in research and practices conducted in recent years on the domain specialization of LLMs. This emerging field of study, with its substantial potential for impact, necessitates a comprehensive and systematic review to better summarize and guide ongoing work in this area. In this article, we present a comprehensive survey on domain specification techniques for large language models, an emerging direction critical for large language model applications. First, we propose a systematic taxonomy that categorizes the LLM domain-specialization techniques based on the accessibility to LLMs and summarizes the framework for all the subcategories as well as their relations and differences to each other. Second, we present an extensive taxonomy of critical application domains that can benefit dramatically from specialized LLMs, discussing their practical significance and open challenges. Last, we offer our insights into the current research status and future trends in this area.

cs.CL↗

arXiv2024

LLMs-based Few-Shot Disease Predictions using EHR: A Novel Approach Combining Predictive Agent Reasoning and Critical Agent Instruction

Electronic health records (EHRs) contain valuable patient data for health-related prediction tasks, such as disease prediction. Traditional approaches rely on supervised learning methods that require large labeled datasets, which can be expensive and challenging to obtain. In this study, we investigate the feasibility of applying Large Language Models (LLMs) to convert structured patient visit data (e.g., diagnoses, labs, prescriptions) into natural language narratives. We evaluate the zero-shot and few-shot performance of LLMs using various EHR-prediction-oriented prompting strategies. Furthermore, we propose a novel approach that utilizes LLM agents with different roles: a predictor agent that makes predictions and generates reasoning processes and a critic agent that analyzes incorrect predictions and provides guidance for improving the reasoning of the predictor agent. Our results demonstrate that with the proposed approach, LLMs can achieve decent few-shot performance compared to traditional supervised learning methods in EHR-based disease predictions, suggesting its potential for health-oriented applications.

cs.CL↗

arXiv2024

DPAR: Decoupled Graph Neural Networks with Node-Level Differential Privacy

Graph Neural Networks (GNNs) have achieved great success in learning with graph-structured data. Privacy concerns have also been raised for the trained models which could expose the sensitive information of graphs including both node features and the structure information. In this paper, we aim to achieve node-level differential privacy (DP) for training GNNs so that a node and its edges are protected. Node DP is inherently difficult for GNNs because all direct and multi-hop neighbors participate in the calculation of gradients for each node via layer-wise message passing and there is no bound on how many direct and multi-hop neighbors a node can have, so existing DP methods will result in high privacy cost or poor utility due to high node sensitivity. We propose a Decoupled GNN with Differentially Private Approximate Personalized PageRank (DPAR) for training GNNs with an enhanced privacy-utility tradeoff. The key idea is to decouple the feature projection and message passing via a DP PageRank algorithm which learns the structure information and uses the top-$K$ neighbors determined by the PageRank for feature aggregation. By capturing the most important neighbors for each node and avoiding the layer-wise message passing, it bounds the node sensitivity and achieves improved privacy-utility tradeoff compared to layer-wise perturbation based methods. We theoretically analyze the node DP guarantee for the two processes combined together and empirically demonstrate better utilities of DPAR with the same level of node DP compared with state-of-the-art methods.

cs.LG↗

arXiv2024

Multimodal Fusion of EHR in Structures and Semantics: Integrating Clinical Records and Notes with Hypergraph and LLM

Electronic Health Records (EHRs) have become increasingly popular to support clinical decision-making and healthcare in recent decades. EHRs usually contain heterogeneous information, such as structural data in tabular form and unstructured data in textual notes. Different types of information in EHRs can complement each other and provide a more complete picture of the health status of a patient. While there has been a lot of research on representation learning of structured EHR data, the fusion of different types of EHR data (multimodal fusion) is not well studied. This is mostly because of the complex medical coding systems used and the noise and redundancy present in the written notes. In this work, we propose a new framework called MINGLE, which integrates both structures and semantics in EHR effectively. Our framework uses a two-level infusion strategy to combine medical concept semantics and clinical note semantics into hypergraph neural networks, which learn the complex interactions between different types of data to generate visit representations for downstream prediction. Experiment results on two EHR datasets, the public MIMIC-III and private CRADLE, show that MINGLE can effectively improve predictive performance by 11.83% relatively, enhancing semantic integration as well as multimodal fusion for structural and textual EHR data.

cs.LG↗

arXiv2024

Are Synthetic Time-series Data Really not as Good as Real Data?

Time-series data presents limitations stemming from data quality issues, bias and vulnerabilities, and generalization problem. Integrating universal data synthesis methods holds promise in improving generalization. However, current methods cannot guarantee that the generator's output covers all unseen real data. In this paper, we introduce InfoBoost -- a highly versatile cross-domain data synthesizing framework with time series representation learning capability. We have developed a method based on synthetic data that enables model training without the need for real data, surpassing the performance of models trained with real data. Additionally, we have trained a universal feature extractor based on our synthetic data that is applicable to all time-series data. Our approach overcomes interference from multiple sources rhythmic signal, noise interference, and long-period features that exceed sampling window capabilities. Through experiments, our non-deep-learning synthetic data enables models to achieve superior reconstruction performance and universal explicit representation extraction without the need for real data.

cs.LG↗

arXiv2024

Evaluation of General Large Language Models in Contextually Assessing Semantic Concepts Extracted from Adult Critical Care Electronic Health Record Notes

The field of healthcare has increasingly turned its focus towards Large Language Models (LLMs) due to their remarkable performance. However, their performance in actual clinical applications has been underexplored. Traditional evaluations based on question-answering tasks don't fully capture the nuanced contexts. This gap highlights the need for more in-depth and practical assessments of LLMs in real-world healthcare settings. Objective: We sought to evaluate the performance of LLMs in the complex clinical context of adult critical care medicine using systematic and comprehensible analytic methods, including clinician annotation and adjudication. Methods: We investigated the performance of three general LLMs in understanding and processing real-world clinical notes. Concepts from 150 clinical notes were identified by MetaMap and then labeled by 9 clinicians. Each LLM's proficiency was evaluated by identifying the temporality and negation of these concepts using different prompts for an in-depth analysis. Results: GPT-4 showed overall superior performance compared to other LLMs. In contrast, both GPT-3.5 and text-davinci-003 exhibit enhanced performance when the appropriate prompting strategies are employed. The GPT family models have demonstrated considerable efficiency, evidenced by their cost-effectiveness and time-saving capabilities. Conclusion: A comprehensive qualitative performance evaluation framework for LLMs is developed and operationalized. This framework goes beyond singular performance aspects. With expert annotations, this methodology not only validates LLMs' capabilities in processing complex medical data but also establishes a benchmark for future LLM evaluations across specialized domains.

cs.CL↗

arXiv2024

Deep Efficient Private Neighbor Generation for Subgraph Federated Learning

Behemoth graphs are often fragmented and separately stored by multiple data owners as distributed subgraphs in many realistic applications. Without harming data privacy, it is natural to consider the subgraph federated learning (subgraph FL) scenario, where each local client holds a subgraph of the entire global graph, to obtain globally generalized graph mining models. To overcome the unique challenge of incomplete information propagation on local subgraphs due to missing cross-subgraph neighbors, previous works resort to the augmentation of local neighborhoods through the joint FL of missing neighbor generators and GNNs. Yet their technical designs have profound limitations regarding the utility, efficiency, and privacy goals of FL. In this work, we propose FedDEP to comprehensively tackle these challenges in subgraph FL. FedDEP consists of a series of novel technical designs: (1) Deep neighbor generation through leveraging the GNN embeddings of potential missing neighbors; (2) Efficient pseudo-FL for neighbor generation through embedding prototyping; and (3) Privacy protection through noise-less edge-local-differential-privacy. We analyze the correctness and efficiency of FedDEP, and provide theoretical guarantees on its privacy. Empirical results on four real-world datasets justify the clear benefits of proposed techniques.

cs.LG↗

arXiv2024

Contrastive Unlearning: A Contrastive Approach to Machine Unlearning

Machine unlearning aims to eliminate the influence of a subset of training samples (i.e., unlearning samples) from a trained model. Effectively and efficiently removing the unlearning samples without negatively impacting the overall model performance is still challenging. In this paper, we propose a contrastive unlearning framework, leveraging the concept of representation learning for more effective unlearning. It removes the influence of unlearning samples by contrasting their embeddings against the remaining samples so that they are pushed away from their original classes and pulled toward other classes. By directly optimizing the representation space, it effectively removes the influence of unlearning samples while maintaining the representations learned from the remaining samples. Experiments on a variety of datasets and models on both class unlearning and sample unlearning showed that contrastive unlearning achieves the best unlearning effects and efficiency with the lowest performance loss compared with the state-of-the-art algorithms.

cs.LG↗

arXiv2024

Evaluation and Enhancement of Semantic Grounding in Large Vision-Language Models

Large Vision-Language Models (LVLMs) offer remarkable benefits for a variety of vision-language tasks. However, a challenge hindering their application in real-world scenarios, particularly regarding safety, robustness, and reliability, is their constrained semantic grounding ability, which pertains to connecting language to the physical-world entities or concepts referenced in images. Therefore, a crucial need arises for a comprehensive study to assess the semantic grounding ability of widely used LVLMs. Despite the significance, sufficient investigation in this direction is currently lacking. Our work bridges this gap by designing a pipeline for generating large-scale evaluation datasets covering fine-grained semantic information, such as color, number, material, etc., along with a thorough assessment of seven popular LVLMs' semantic grounding ability. Results highlight prevalent misgrounding across various aspects and degrees. To address this issue, we propose a data-centric enhancement method that aims to improve LVLMs' semantic grounding ability through multimodal instruction tuning on fine-grained conversations. Experiments on enhanced LVLMs demonstrate notable improvements in addressing misgrounding issues.

cs.CV↗

arXiv2023

Better with Less: A Data-Active Perspective on Pre-Training Graph Neural Networks

Pre-training on graph neural networks (GNNs) aims to learn transferable knowledge for downstream tasks with unlabeled data, and it has recently become an active research area. The success of graph pre-training models is often attributed to the massive amount of input data. In this paper, however, we identify the curse of big data phenomenon in graph pre-training: more training data do not necessarily lead to better downstream performance. Motivated by this observation, we propose a better-with-less framework for graph pre-training: fewer, but carefully chosen data are fed into a GNN model to enhance pre-training. The proposed pre-training pipeline is called the data-active graph pre-training (APT) framework, and is composed of a graph selector and a pre-training model. The graph selector chooses the most representative and instructive data points based on the inherent properties of graphs as well as predictive uncertainty. The proposed predictive uncertainty, as feedback from the pre-training model, measures the confidence level of the model in the data. When fed with the chosen data, on the other hand, the pre-training model grasps an initial understanding of the new, unseen data, and at the same time attempts to remember the knowledge learned from previous data. Therefore, the integration and interaction between these two components form a unified framework (APT), in which graph pre-training is performed in a progressive and iterative way. Experiment results show that the proposed APT is able to obtain an efficient pre-training model with fewer training data and better downstream performance.

cs.LG↗

arXiv2023

Open Visual Knowledge Extraction via Relation-Oriented Multimodality Model Prompting

Images contain rich relational knowledge that can help machines understand the world. Existing methods on visual knowledge extraction often rely on the pre-defined format (e.g., sub-verb-obj tuples) or vocabulary (e.g., relation types), restricting the expressiveness of the extracted knowledge. In this work, we take a first exploration to a new paradigm of open visual knowledge extraction. To achieve this, we present OpenVik which consists of an open relational region detector to detect regions potentially containing relational knowledge and a visual knowledge generator that generates format-free knowledge by prompting the large multimodality model with the detected region of interest. We also explore two data enhancement techniques for diversifying the generated format-free visual knowledge. Extensive knowledge quality evaluations highlight the correctness and uniqueness of the extracted open visual knowledge by OpenVik. Moreover, integrating our extracted knowledge across various visual reasoning applications shows consistent improvements, indicating the real-world applicability of OpenVik.

cs.CL↗

arXiv2023

MuG: A Multimodal Classification Benchmark on Game Data with Tabular, Textual, and Visual Fields

Previous research has demonstrated the advantages of integrating data from multiple sources over traditional unimodal data, leading to the emergence of numerous novel multimodal applications. We propose a multimodal classification benchmark MuG with eight datasets that allows researchers to evaluate and improve their models. These datasets are collected from four various genres of games that cover tabular, textual, and visual modalities. We conduct multi-aspect data analysis to provide insights into the benchmark, including label balance ratios, percentages of missing features, distributions of data within each modality, and the correlations between labels and input modalities. We further present experimental results obtained by several state-of-the-art unimodal classifiers and multimodal classifiers, which demonstrate the challenging and multimodal-dependent properties of the benchmark. MuG is released at https://github.com/lujiaying/MUG-Bench with the data, tutorials, and implemented baselines.

cs.LG↗

arXiv2023

Helper Recommendation with seniority control in Online Health Community

Online health communities (OHCs) are forums where patients with similar conditions communicate their experiences and provide moral support. Social support in OHCs plays a crucial role in easing and rehabilitating patients. However, many time-sensitive questions from patients often remain unanswered due to the multitude of threads and the random nature of patient visits in OHCs. To address this issue, it is imperative to propose a recommender system that assists solution seekers in finding appropriate problem helpers. Nevertheless, developing a recommendation algorithm to enhance social support in OHCs remains an under-explored area. Traditional recommender systems cannot be directly adapted due to the following obstacles. First, unlike user-item links in traditional recommender systems, it is hard to model the social support behind helper-seeker links in OHCs since they are formed based on various heterogeneous reasons. Second, it is difficult to distinguish the impact of historical activities in characterizing patients. Third, it is significantly challenging to ensure that the recommended helpers possess sufficient expertise to assist the seekers. To tackle the aforementioned challenges, we develop a Monotonically regularIzed diseNTangled Variational Autoencoders (MINT) model to strengthen social support in OHCs.

cs.SI↗

arXiv2023

Dynamic Brain Transformer with Multi-level Attention for Functional Brain Network Analysis

Recent neuroimaging studies have highlighted the importance of network-centric brain analysis, particularly with functional magnetic resonance imaging. The emergence of Deep Neural Networks has fostered a substantial interest in predicting clinical outcomes and categorizing individuals based on brain networks. However, the conventional approach involving static brain network analysis offers limited potential in capturing the dynamism of brain function. Although recent studies have attempted to harness dynamic brain networks, their high dimensionality and complexity present substantial challenges. This paper proposes a novel methodology, Dynamic bRAin Transformer (DART), which combines static and dynamic brain networks for more effective and nuanced brain function analysis. Our model uses the static brain network as a baseline, integrating dynamic brain networks to enhance performance against traditional methods. We innovatively employ attention mechanisms, enhancing model explainability and exploiting the dynamic brain network's temporal variations. The proposed approach offers a robust solution to the low signal-to-noise ratio of blood-oxygen-level-dependent signals, a recurring issue in direct DNN modeling. It also provides valuable insights into which brain circuits or dynamic networks contribute more to final predictions. As such, DRAT shows a promising direction in neuroimaging studies, contributing to the comprehensive understanding of brain organization and the role of neural circuits.

q-bio.NC↗

arXiv2023

Deep Generation of Heterogeneous Networks

Heterogeneous graphs are ubiquitous data structures that can inherently capture multi-type and multi-modal interactions between objects. In recent years, research on encoding heterogeneous graph into latent representations have enjoyed a rapid increase. However, its reverse process, namely how to construct heterogeneous graphs from underlying representations and distributions have not been well explored due to several challenges in 1) modeling the local heterogeneous semantic distribution; 2) preserving the graph-structured distributions over the local semantics; and 3) characterizing the global heterogeneous graph distributions. To address these challenges, we propose a novel framework for heterogeneous graph generation (HGEN) that jointly captures the semantic, structural, and global distributions of heterogeneous graphs. Specifically, we propose a heterogeneous walk generator that hierarchically generates meta-paths and their path instances. In addition, a novel heterogeneous graph assembler is developed that can sample and combine the generated meta-path instances (e.g., walks) into heterogeneous graphs in a stratified manner. Theoretical analysis on the preservation of heterogeneous graph patterns by the proposed generation process has been performed. Extensive experiments on multiple real-world and synthetic heterogeneous graph datasets demonstrate the effectiveness of the proposed HGEN in generating realistic heterogeneous graphs.

cs.SI↗

arXiv2023

BrainNet: Epileptic Wave Detection from SEEG with Hierarchical Graph Diffusion Learning

Epilepsy is one of the most serious neurological diseases, affecting 1-2% of the world's population. The diagnosis of epilepsy depends heavily on the recognition of epileptic waves, i.e., disordered electrical brainwave activity in the patient's brain. Existing works have begun to employ machine learning models to detect epileptic waves via cortical electroencephalogram (EEG). However, the recently developed stereoelectrocorticography (SEEG) method provides information in stereo that is more precise than conventional EEG, and has been broadly applied in clinical practice. Therefore, we propose the first data-driven study to detect epileptic waves in a real-world SEEG dataset. While offering new opportunities, SEEG also poses several challenges. In clinical practice, epileptic wave activities are considered to propagate between different regions in the brain. These propagation paths, also known as the epileptogenic network, are deemed to be a key factor in the context of epilepsy surgery. However, the question of how to extract an exact epileptogenic network for each patient remains an open problem in the field of neuroscience. To address these challenges, we propose a novel model (BrainNet) that jointly learns the dynamic diffusion graphs and models the brain wave diffusion patterns. In addition, our model effectively aids in resisting label imbalance and severe noise by employing several self-supervised learning tasks and a hierarchical framework. By experimenting with the extensive real SEEG dataset obtained from multiple patients, we find that BrainNet outperforms several latest state-of-the-art baselines derived from time-series analysis.

eess.SP↗

arXiv2023

Weakly-Supervised Scientific Document Classification via Retrieval-Augmented Multi-Stage Training

Scientific document classification is a critical task for a wide range of applications, but the cost of obtaining massive amounts of human-labeled data can be prohibitive. To address this challenge, we propose a weakly-supervised approach for scientific document classification using label names only. In scientific domains, label names often include domain-specific concepts that may not appear in the document corpus, making it difficult to match labels and documents precisely. To tackle this issue, we propose WANDER, which leverages dense retrieval to perform matching in the embedding space to capture the semantics of label names. We further design the label name expansion module to enrich the label name representations. Lastly, a self-training step is used to refine the predictions. The experiments on three datasets show that WANDER outperforms the best baseline by 11.9% on average. Our code will be published at https://github.com/ritaranx/wander.

cs.CL↗

arXiv2023

When to Pre-Train Graph Neural Networks? From Data Generation Perspective!

In recent years, graph pre-training has gained significant attention, focusing on acquiring transferable knowledge from unlabeled graph data to improve downstream performance. Despite these recent endeavors, the problem of negative transfer remains a major concern when utilizing graph pre-trained models to downstream tasks. Previous studies made great efforts on the issue of what to pre-train and how to pre-train by designing a variety of graph pre-training and fine-tuning strategies. However, there are cases where even the most advanced "pre-train and fine-tune" paradigms fail to yield distinct benefits. This paper introduces a generic framework W2PGNN to answer the crucial question of when to pre-train (i.e., in what situations could we take advantage of graph pre-training) before performing effortful pre-training or fine-tuning. We start from a new perspective to explore the complex generative mechanisms from the pre-training data to downstream data. In particular, W2PGNN first fits the pre-training data into graphon bases, each element of graphon basis (i.e., a graphon) identifies a fundamental transferable pattern shared by a collection of pre-training graphs. All convex combinations of graphon bases give rise to a generator space, from which graphs generated form the solution space for those downstream data that can benefit from pre-training. In this manner, the feasibility of pre-training can be quantified as the generation probability of the downstream data from any generator in the generator space. W2PGNN offers three broad applications: providing the application scope of graph pre-trained models, quantifying the feasibility of pre-training, and assistance in selecting pre-training data to enhance downstream performance. We provide a theoretically sound solution for the first application and extensive empirical justifications for the latter two applications.

cs.LG↗