arXiv subjects

Hong Yu

Publications and source records attributed to Hong Yu.

At least 91 records · Page 5Linked to original sources

arXiv2024

JMLR: Joint Medical LLM and Retrieval Training for Enhancing Reasoning and Professional Question Answering Capability

Large Language Models (LLMs) have demonstrated a remarkable potential in medical knowledge acquisition and question-answering. However, LLMs can potentially hallucinate and yield factually incorrect outcomes, even with domain-specific pretraining. Previously, retrieval augmented generation (RAG) has limited success in addressing hallucinations. Unlike previous methods in RAG where the retrieval model was trained separately from the LLM, we introduce JMLR (for Jointly trains LLM and information Retrieval) during the fine-tuning phase. The synchronized training mechanism enhances JMLR's ability to retrieve clinical guidelines and leverage medical knowledge to reason and answer questions and reduces the demand for computational resources. We evaluated JMLR on the important medical question-answering application. Our experimental results demonstrate that JMLR-13B (70.5%) outperforms a previous state-of-the-art open-source model using conventional pre-training and fine-tuning Meditron-70B (68.9%) and Llama2-13B with RAG (67.7%) on a medical question-answering dataset. Comprehensive evaluations reveal JMLR-13B enhances reasoning quality and reduces hallucinations better than Claude3-Opus. Additionally, JMLR-13B (148 GPU hours) also trains much faster than Meditron-70B (42630 GPU hours). Through this work, we provide a new and efficient knowledge enhancement method for healthcare, demonstrating the potential of integrating retrieval and LLM training for medical question-answering systems.

cs.CL↗

arXiv2024

NoteChat: A Dataset of Synthetic Doctor-Patient Conversations Conditioned on Clinical Notes

We introduce NoteChat, a novel cooperative multi-agent framework leveraging Large Language Models (LLMs) to generate patient-physician dialogues. NoteChat embodies the principle that an ensemble of role-specific LLMs, through structured role-play and strategic prompting, can perform their assigned roles more effectively. The synergy among these role-playing LLMs results in a cohesive and efficient dialogue generation. Evaluation on MTS-dialogue, a benchmark dataset for patient-physician dialogues-note pairs, shows that models trained with the augmented synthetic patient-physician dialogues by NoteChat outperforms other state-of-the-art models for generating clinical notes. Our comprehensive automatic and human evaluation demonstrates that NoteChat substantially surpasses state-of-the-art models like ChatGPT and GPT-4 up to 22.78% by domain experts in generating superior synthetic patient-physician dialogues based on clinical notes. NoteChat has the potential to engage patients directly and help clinical documentation, a leading cause of physician burnout.

cs.CL↗

arXiv2024

ReadCtrl: Personalizing text generation with readability-controlled instruction learning

Content generation conditioning on users's readability is an important application for personalization. In an era of large language models (LLMs), readability-controlled text generation based on LLMs has become increasingly important. This paper introduces a novel methodology called "Readability-Controlled Instruction Learning (ReadCtrl)," which aims to instruction-tune LLMs to tailor users' readability levels. Unlike the traditional methods, which primarily focused on categorical readability adjustments typically classified as high, medium, and low or expert and layperson levels with limited success, ReadCtrl introduces a dynamic framework that enables LLMs to generate content at various (near continuous level) complexity levels, thereby enhancing their versatility across different applications. Our results show that the ReadCtrl-Mistral-7B models significantly outperformed strong baseline models such as GPT-4 and Claude-3, with a win rate of 52.1%:35.7% against GPT-4 in human evaluations. Furthermore, Read-Ctrl has shown significant improvements in automatic evaluations, as evidenced by better readability metrics (e.g., FOG, FKGL) and generation quality metrics (e.g., BLEU, SARI, SummaC-Factuality, UniEval-Consistency and Coherence). These results underscore Read-Ctrl's effectiveness and tenacity in producing high-quality, contextually appropriate outputs that closely align with targeted readability levels, marking a significant advancement in personalized content generation using LLMs.

cs.CL↗

arXiv2024

BioInstruct: Instruction Tuning of Large Language Models for Biomedical Natural Language Processing

To enhance the performance of large language models (LLMs) in biomedical natural language processing (BioNLP) by introducing a domain-specific instruction dataset and examining its impact when combined with multi-task learning principles. We created the BioInstruct, comprising 25,005 instructions to instruction-tune LLMs(LLaMA 1 & 2, 7B & 13B version). The instructions were created by prompting the GPT-4 language model with three-seed samples randomly drawn from an 80 human curated instructions. We employed Low-Rank Adaptation(LoRA) for parameter-efficient fine-tuning. We then evaluated these instruction-tuned LLMs on several BioNLP tasks, which can be grouped into three major categories: question answering(QA), information extraction(IE), and text generation(GEN). We also examined whether categories(e.g., QA, IE, and generation) of instructions impact model performance. Comparing with LLMs without instruction-tuned, our instruction-tuned LLMs demonstrated marked performance gains: 17.3% in QA, 5.7% in IE, and 96% in Generation tasks. Our 7B-parameter instruction-tuned LLaMA 1 model was competitive or even surpassed other LLMs in the biomedical domain that were also fine-tuned from LLaMA 1 with vast domain-specific data or a variety of tasks. Our results also show that the performance gain is significantly higher when instruction fine-tuning is conducted with closely related tasks. Our findings align with the observations of multi-task learning, suggesting the synergies between two tasks. The BioInstruct dataset serves as a valuable resource and instruction tuned LLMs lead to the best performing BioNLP applications.

cs.CL↗

arXiv2024

UMass-BioNLP at MEDIQA-M3G 2024: DermPrompt -- A Systematic Exploration of Prompt Engineering with GPT-4V for Dermatological Diagnosis

This paper presents our team's participation in the MEDIQA-ClinicalNLP2024 shared task B. We present a novel approach to diagnosing clinical dermatology cases by integrating large multimodal models, specifically leveraging the capabilities of GPT-4V under a retriever and a re-ranker framework. Our investigation reveals that GPT-4V, when used as a retrieval agent, can accurately retrieve the correct skin condition 85% of the time using dermatological images and brief patient histories. Additionally, we empirically show that Naive Chain-of-Thought (CoT) works well for retrieval while Medical Guidelines Grounded CoT is required for accurate dermatological diagnosis. Further, we introduce a Multi-Agent Conversation (MAC) framework and show its superior performance and potential over the best CoT strategy. The experiments suggest that using naive CoT for retrieval and multi-agent conversation for critique-based diagnosis, GPT-4V can lead to an early and accurate diagnosis of dermatological conditions. The implications of this work extend to improving diagnostic workflows, supporting dermatological education, and enhancing patient care by providing a scalable, accessible, and accurate diagnostic tool.

cs.AI↗

arXiv2024

Liberating Seen Classes: Boosting Few-Shot and Zero-Shot Text Classification via Anchor Generation and Classification Reframing

Few-shot and zero-shot text classification aim to recognize samples from novel classes with limited labeled samples or no labeled samples at all. While prevailing methods have shown promising performance via transferring knowledge from seen classes to unseen classes, they are still limited by (1) Inherent dissimilarities among classes make the transformation of features learned from seen classes to unseen classes both difficult and inefficient. (2) Rare labeled novel samples usually cannot provide enough supervision signals to enable the model to adjust from the source distribution to the target distribution, especially for complicated scenarios. To alleviate the above issues, we propose a simple and effective strategy for few-shot and zero-shot text classification. We aim to liberate the model from the confines of seen classes, thereby enabling it to predict unseen categories without the necessity of training on seen classes. Specifically, for mining more related unseen category knowledge, we utilize a large pre-trained language model to generate pseudo novel samples, and select the most representative ones as category anchors. After that, we convert the multi-class classification task into a binary classification task and use the similarities of query-anchor pairs for prediction to fully leverage the limited supervision signals. Extensive experiments on six widely used public datasets show that our proposed method can outperform other strong baselines significantly in few-shot and zero-shot tasks, even without using any seen class samples.

cs.CV↗

arXiv2024

LocalTweets to LocalHealth: A Mental Health Surveillance Framework Based on Twitter Data

Prior research on Twitter (now X) data has provided positive evidence of its utility in developing supplementary health surveillance systems. In this study, we present a new framework to surveil public health, focusing on mental health (MH) outcomes. We hypothesize that locally posted tweets are indicative of local MH outcomes and collect tweets posted from 765 neighborhoods (census block groups) in the USA. We pair these tweets from each neighborhood with the corresponding MH outcome reported by the Center for Disease Control (CDC) to create a benchmark dataset, LocalTweets. With LocalTweets, we present the first population-level evaluation task for Twitter-based MH surveillance systems. We then develop an efficient and effective method, LocalHealth, for predicting MH outcomes based on LocalTweets. When used with GPT3.5, LocalHealth achieves the highest F1-score and accuracy of 0.7429 and 79.78\%, respectively, a 59\% improvement in F1-score over the GPT3.5 in zero-shot setting. We also utilize LocalHealth to extrapolate CDC's estimates to proxy unreported neighborhoods, achieving an F1-score of 0.7291. Our work suggests that Twitter data can be effectively leveraged to simulate neighborhood-level MH outcomes.

cs.SI↗

arXiv2024

ODD: A Benchmark Dataset for the Natural Language Processing based Opioid Related Aberrant Behavior Detection

Opioid related aberrant behaviors (ORABs) present novel risk factors for opioid overdose. This paper introduces a novel biomedical natural language processing benchmark dataset named ODD, for ORAB Detection Dataset. ODD is an expert-annotated dataset designed to identify ORABs from patients' EHR notes and classify them into nine categories; 1) Confirmed Aberrant Behavior, 2) Suggested Aberrant Behavior, 3) Opioids, 4) Indication, 5) Diagnosed opioid dependency, 6) Benzodiazepines, 7) Medication Changes, 8) Central Nervous System-related, and 9) Social Determinants of Health. We explored two state-of-the-art natural language processing models (fine-tuning and prompt-tuning approaches) to identify ORAB. Experimental results show that the prompt-tuning models outperformed the fine-tuning models in most categories and the gains were especially higher among uncommon categories (Suggested Aberrant Behavior, Confirmed Aberrant Behaviors, Diagnosed Opioid Dependence, and Medication Change). Although the best model achieved the highest 88.17% on macro average area under precision recall curve, uncommon classes still have a large room for performance improvement. ODD is publicly available.

cs.CL↗

arXiv2024

ClinicalMamba: A Generative Clinical Language Model on Longitudinal Clinical Notes

The advancement of natural language processing (NLP) systems in healthcare hinges on language model ability to interpret the intricate information contained within clinical notes. This process often requires integrating information from various time points in a patient's medical history. However, most earlier clinical language models were pretrained with a context length limited to roughly one clinical document. In this study, We introduce ClinicalMamba, a specialized version of the Mamba language model, pretrained on a vast corpus of longitudinal clinical notes to address the unique linguistic characteristics and information processing needs of the medical domain. ClinicalMamba, with 130 million and 2.8 billion parameters, demonstrates a superior performance in modeling clinical language across extended text lengths compared to Mamba and clinical Llama. With few-shot learning, ClinicalMamba achieves notable benchmarks in speed and accuracy, outperforming existing clinical language models and general domain large models like GPT-4 in longitudinal clinical notes information extraction tasks.

cs.CL↗

arXiv2024

SynthDST: Synthetic Data is All You Need for Few-Shot Dialog State Tracking

In-context learning with Large Language Models (LLMs) has emerged as a promising avenue of research in Dialog State Tracking (DST). However, the best-performing in-context learning methods involve retrieving and adding similar examples to the prompt, requiring access to labeled training data. Procuring such training data for a wide range of domains and applications is time-consuming, expensive, and, at times, infeasible. While zero-shot learning requires no training data, it significantly lags behind the few-shot setup. Thus, `\textit{Can we efficiently generate synthetic data for any dialogue schema to enable few-shot prompting?}' Addressing this question, we propose \method, a data generation framework tailored for DST, utilizing LLMs. Our approach only requires the dialogue schema and a few hand-crafted dialogue templates to synthesize natural, coherent, and free-flowing dialogues with DST annotations. Few-shot learning using data from {\method} results in $4-5%$ improvement in Joint Goal Accuracy over the zero-shot baseline on MultiWOZ 2.1 and 2.4. Remarkably, our few-shot learning approach recovers nearly $98%$ of the performance compared to the few-shot setup using human-annotated training data. Our synthetic data and code can be accessed at https://github.com/apple/ml-synthdst

cs.CL↗

arXiv2024

HQA-Attack: Toward High Quality Black-Box Hard-Label Adversarial Attack on Text

Black-box hard-label adversarial attack on text is a practical and challenging task, as the text data space is inherently discrete and non-differentiable, and only the predicted label is accessible. Research on this problem is still in the embryonic stage and only a few methods are available. Nevertheless, existing methods rely on the complex heuristic algorithm or unreliable gradient estimation strategy, which probably fall into the local optimum and inevitably consume numerous queries, thus are difficult to craft satisfactory adversarial examples with high semantic similarity and low perturbation rate in a limited query budget. To alleviate above issues, we propose a simple yet effective framework to generate high quality textual adversarial examples under the black-box hard-label attack scenarios, named HQA-Attack. Specifically, after initializing an adversarial example randomly, HQA-attack first constantly substitutes original words back as many as possible, thus shrinking the perturbation rate. Then it leverages the synonym set of the remaining changed words to further optimize the adversarial example with the direction which can improve the semantic similarity and satisfy the adversarial condition simultaneously. In addition, during the optimizing procedure, it searches a transition synonym word for each changed word, thus avoiding traversing the whole synonym set and reducing the query number to some extent. Extensive experimental results on five text classification datasets, three natural language inference datasets and two real-world APIs have shown that the proposed HQA-Attack method outperforms other strong baselines significantly.

cs.CL↗

arXiv2024

Can Large Language Models Understand Context?

Understanding context is key to understanding human language, an ability which Large Language Models (LLMs) have been increasingly seen to demonstrate to an impressive extent. However, though the evaluation of LLMs encompasses various domains within the realm of Natural Language Processing, limited attention has been paid to probing their linguistic capability of understanding contextual features. This paper introduces a context understanding benchmark by adapting existing datasets to suit the evaluation of generative models. This benchmark comprises of four distinct tasks and nine datasets, all featuring prompts designed to assess the models' ability to understand context. First, we evaluate the performance of LLMs under the in-context learning pretraining scenario. Experimental results indicate that pre-trained dense models struggle with understanding more nuanced contextual features when compared to state-of-the-art fine-tuned models. Second, as LLM compression holds growing significance in both research and real-world applications, we assess the context understanding of quantized models under in-context-learning settings. We find that 3-bit post-training quantization leads to varying degrees of performance reduction on our benchmark. We conduct an extensive analysis of these scenarios to substantiate our experimental results.

cs.CL↗

arXiv2024

Mental-LLM: Leveraging Large Language Models for Mental Health Prediction via Online Text Data

Advances in large language models (LLMs) have empowered a variety of applications. However, there is still a significant gap in research when it comes to understanding and enhancing the capabilities of LLMs in the field of mental health. In this work, we present a comprehensive evaluation of multiple LLMs on various mental health prediction tasks via online text data, including Alpaca, Alpaca-LoRA, FLAN-T5, GPT-3.5, and GPT-4. We conduct a broad range of experiments, covering zero-shot prompting, few-shot prompting, and instruction fine-tuning. The results indicate a promising yet limited performance of LLMs with zero-shot and few-shot prompt designs for mental health tasks. More importantly, our experiments show that instruction finetuning can significantly boost the performance of LLMs for all tasks simultaneously. Our best-finetuned models, Mental-Alpaca and Mental-FLAN-T5, outperform the best prompt design of GPT-3.5 (25 and 15 times bigger) by 10.9% on balanced accuracy and the best of GPT-4 (250 and 150 times bigger) by 4.8%. They further perform on par with the state-of-the-art task-specific language model. We also conduct an exploratory case study on LLMs' capability on mental health reasoning tasks, illustrating the promising capability of certain models such as GPT-4. We summarize our findings into a set of action guidelines for potential methods to enhance LLMs' capability for mental health tasks. Meanwhile, we also emphasize the important limitations before achieving deployability in real-world mental health settings, such as known racial and gender bias. We highlight the important ethical risks accompanying this line of research.

cs.CL↗

arXiv2023

EHR Interaction Between Patients and AI: NoteAid EHR Interaction

With the rapid advancement of Large Language Models (LLMs) and their outstanding performance in semantic and contextual comprehension, the potential of LLMs in specialized domains warrants exploration. This paper introduces the NoteAid EHR Interaction Pipeline, an innovative approach developed using generative LLMs to assist in patient education, a task stemming from the need to aid patients in understanding Electronic Health Records (EHRs). Building upon the NoteAid work, we designed two novel tasks from the patient's perspective: providing explanations for EHR content that patients may not understand and answering questions posed by patients after reading their EHRs. We extracted datasets containing 10,000 instances from MIMIC Discharge Summaries and 876 instances from the MADE medical notes collection, respectively, executing the two tasks through the NoteAid EHR Interaction Pipeline with these data. Performance data of LLMs on these tasks were collected and constructed as the corresponding NoteAid EHR Interaction Dataset. Through a comprehensive evaluation of the entire dataset using LLM assessment and a rigorous manual evaluation of 64 instances, we showcase the potential of LLMs in patient education. Besides, the results provide valuable data support for future exploration and applications in this domain while also supplying high-quality synthetic datasets for in-house system training.

cs.CL↗

arXiv2023

Two Directions for Clinical Data Generation with Large Language Models: Data-to-Label and Label-to-Data

Large language models (LLMs) can generate natural language texts for various domains and tasks, but their potential for clinical text mining, a domain with scarce, sensitive, and imbalanced medical data, is underexplored. We investigate whether LLMs can augment clinical data for detecting Alzheimer's Disease (AD)-related signs and symptoms from electronic health records (EHRs), a challenging task that requires high expertise. We create a novel pragmatic taxonomy for AD sign and symptom progression based on expert knowledge, which guides LLMs to generate synthetic data following two different directions: "data-to-label", which labels sentences from a public EHR collection with AD-related signs and symptoms; and "label-to-data", which generates sentences with AD-related signs and symptoms based on the label definition. We train a system to detect AD-related signs and symptoms from EHRs, using three datasets: (1) a gold dataset annotated by human experts on longitudinal EHRs of AD patients; (2) a silver dataset created by the data-to-label method; and (3) a bronze dataset created by the label-to-data method. We find that using the silver and bronze datasets improves the system performance, outperforming the system using only the gold dataset. This shows that LLMs can generate synthetic clinical data for a complex task by incorporating expert knowledge, and our label-to-data method can produce datasets that are free of sensitive information, while maintaining acceptable quality.

cs.CL↗

arXiv2023

Synthetic Imitation Edit Feedback for Factual Alignment in Clinical Summarization

Large Language Models (LLMs) like the GPT and LLaMA families have demonstrated exceptional capabilities in capturing and condensing critical contextual information and achieving state-of-the-art performance in the summarization task. However, community concerns about these models' hallucination issues continue to rise. LLMs sometimes generate factually hallucinated summaries, which can be extremely harmful in the clinical domain NLP tasks (e.g., clinical note summarization), where factually incorrect statements can lead to critically erroneous diagnoses. Fine-tuning LLMs using human feedback has shown the promise of aligning LLMs to be factually consistent during generation, but such training procedure requires high-quality human-annotated data, which can be extremely expensive to get in the clinical domain. In this work, we propose a new pipeline using ChatGPT instead of human experts to generate high-quality feedback data for improving factual consistency in the clinical note summarization task. We focus specifically on edit feedback because recent work discusses the shortcomings of human alignment via preference feedback in complex situations (such as clinical NLP tasks that require extensive expert knowledge), as well as some advantages of collecting edit feedback from domain experts. In addition, although GPT has reached the expert level in many clinical NLP tasks (e.g., USMLE QA), there is not much previous work discussing whether GPT can generate expert-level edit feedback for LMs in the clinical note summarization task. We hope to fill this gap. Finally, our evaluations demonstrate the potential use of GPT edits in human alignment, especially from a factuality perspective.

cs.CL↗

arXiv2023

MARRS: Multimodal Reference Resolution System

Successfully handling context is essential for any dialog understanding task. This context maybe be conversational (relying on previous user queries or system responses), visual (relying on what the user sees, for example, on their screen), or background (based on signals such as a ringing alarm or playing music). In this work, we present an overview of MARRS, or Multimodal Reference Resolution System, an on-device framework within a Natural Language Understanding system, responsible for handling conversational, visual and background context. In particular, we present different machine learning models to enable handing contextual queries; specifically, one to enable reference resolution, and one to handle context via query rewriting. We also describe how these models complement each other to form a unified, coherent, lightweight system that can understand context while preserving user privacy.

cs.CL↗

arXiv2023

EHRTutor: Enhancing Patient Understanding of Discharge Instructions

Large language models have shown success as a tutor in education in various fields. Educating patients about their clinical visits plays a pivotal role in patients' adherence to their treatment plans post-discharge. This paper presents EHRTutor, an innovative multi-component framework leveraging the Large Language Model (LLM) for patient education through conversational question-answering. EHRTutor first formulates questions pertaining to the electronic health record discharge instructions. It then educates the patient through conversation by administering each question as a test. Finally, it generates a summary at the end of the conversation. Evaluation results using LLMs and domain experts have shown a clear preference for EHRTutor over the baseline. Moreover, EHRTutor also offers a framework for generating synthetic patient education dialogues that can be used for future in-house system training.

cs.CL↗