arXiv subjects

Zhichao Yang

Publications and source records attributed to Zhichao Yang.

At least 55 records · Page 3Linked to original sources

arXiv2024

Large Language Models are In-context Teachers for Knowledge Reasoning

In this work, we study in-context teaching (ICT), where a teacher provides in-context example rationales to teach a student to reason over unseen cases. Human teachers are usually required to craft in-context demonstrations, which are costly and have high variance. We ask whether a large language model (LLM) can serve as a more effective in-context teacher for itself or other LLMs, compared to humans. Inspired by the Encoding Specificity Hypothesis from human episodic memory, we hypothesize that in-context exemplars crafted by the teacher should match the training data of the student. This hypothesis motivates us to propose Self-Explain where an LLM's self-elicited explanations are used as in-context demonstrations for prompting it as they are generalized from the model's training examples. Self-Explain is shown to significantly outperform using human-crafted exemplars and other baselines. Furthermore, we reveal that for ICT, rationales from different teacher LLMs or human experts that more resemble the student LLM's self-explanations are better in-context demonstrations. This supports our encoding specificity hypothesis. We then propose Teach-Back that aligns a teacher LLM with the student to enhance the ICT performance. For example, Teach-Back enables a 7B model to teach the much larger GPT-3.5 in context, surpassing human teachers by around 5% in test accuracy on medical question answering.

cs.CL↗

arXiv2024

Copula-based transferable models for synthetic population generation

Population synthesis involves generating synthetic yet realistic representations of a target population of micro-agents for behavioral modeling and simulation. Traditional methods, often reliant on target population samples, such as census data or travel surveys, face limitations due to high costs and small sample sizes, particularly at smaller geographical scales. We propose a novel framework based on copulas to generate synthetic data for target populations where only empirical marginal distributions are known. This method utilizes samples from different populations with similar marginal dependencies, introduces a spatial component into population synthesis, and considers various information sources for more realistic generators. Concretely, the process involves normalizing the data and treating it as realizations of a given copula, and then training a generative model before incorporating the information on the marginals of the target population. Utilizing American Community Survey data, we assess our framework's performance through standardized root mean squared error (SRMSE) and so-called sampled zeros. We focus on its capacity to transfer a model learned from one population to another. Our experiments include transfer tests between regions at the same geographical level as well as to lower geographical levels, hence evaluating the framework's adaptability in varied spatial contexts. We compare Bayesian Networks, Variational Autoencoders, and Generative Adversarial Networks, both individually and combined with our copula framework. Results show that the copula enhances machine learning methods in matching the marginals of the reference data. Furthermore, it consistently surpasses Iterative Proportional Fitting in terms of SRMSE in the transferability experiments, while introducing unique observations not found in the original training sample.

stat.ML↗

arXiv2024

AesExpert: Towards Multi-modality Foundation Model for Image Aesthetics Perception

The highly abstract nature of image aesthetics perception (IAP) poses significant challenge for current multimodal large language models (MLLMs). The lack of human-annotated multi-modality aesthetic data further exacerbates this dilemma, resulting in MLLMs falling short of aesthetics perception capabilities. To address the above challenge, we first introduce a comprehensively annotated Aesthetic Multi-Modality Instruction Tuning (AesMMIT) dataset, which serves as the footstone for building multi-modality aesthetics foundation models. Specifically, to align MLLMs with human aesthetics perception, we construct a corpus-rich aesthetic critique database with 21,904 diverse-sourced images and 88K human natural language feedbacks, which are collected via progressive questions, ranging from coarse-grained aesthetic grades to fine-grained aesthetic descriptions. To ensure that MLLMs can handle diverse queries, we further prompt GPT to refine the aesthetic critiques and assemble the large-scale aesthetic instruction tuning dataset, i.e. AesMMIT, which consists of 409K multi-typed instructions to activate stronger aesthetic capabilities. Based on the AesMMIT database, we fine-tune the open-sourced general foundation models, achieving multi-modality Aesthetic Expert models, dubbed AesExpert. Extensive experiments demonstrate that the proposed AesExpert models deliver significantly better aesthetic perception performances than the state-of-the-art MLLMs, including the most advanced GPT-4V and Gemini-Pro-Vision. Project homepage: https://yipoh.github.io/aes-expert/.

cs.CV↗

arXiv2024

Do Physicians Know How to Prompt? The Need for Automatic Prompt Optimization Help in Clinical Note Generation

This study examines the effect of prompt engineering on the performance of Large Language Models (LLMs) in clinical note generation. We introduce an Automatic Prompt Optimization (APO) framework to refine initial prompts and compare the outputs of medical experts, non-medical experts, and APO-enhanced GPT3.5 and GPT4. Results highlight GPT4 APO's superior performance in standardizing prompt quality across clinical note sections. A human-in-the-loop approach shows that experts maintain content quality post-APO, with a preference for their own modifications, suggesting the value of expert customization. We recommend a two-phase optimization process, leveraging APO-GPT4 for consistency and expert input for personalization.

cs.CL↗

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

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

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

AesBench: An Expert Benchmark for Multimodal Large Language Models on Image Aesthetics Perception

With collective endeavors, multimodal large language models (MLLMs) are undergoing a flourishing development. However, their performances on image aesthetics perception remain indeterminate, which is highly desired in real-world applications. An obvious obstacle lies in the absence of a specific benchmark to evaluate the effectiveness of MLLMs on aesthetic perception. This blind groping may impede the further development of more advanced MLLMs with aesthetic perception capacity. To address this dilemma, we propose AesBench, an expert benchmark aiming to comprehensively evaluate the aesthetic perception capacities of MLLMs through elaborate design across dual facets. (1) We construct an Expert-labeled Aesthetics Perception Database (EAPD), which features diversified image contents and high-quality annotations provided by professional aesthetic experts. (2) We propose a set of integrative criteria to measure the aesthetic perception abilities of MLLMs from four perspectives, including Perception (AesP), Empathy (AesE), Assessment (AesA) and Interpretation (AesI). Extensive experimental results underscore that the current MLLMs only possess rudimentary aesthetic perception ability, and there is still a significant gap between MLLMs and humans. We hope this work can inspire the community to engage in deeper explorations on the aesthetic potentials of MLLMs. Source data will be available at https://github.com/yipoh/AesBench.

cs.CV↗

arXiv2023

Surpassing GPT-4 Medical Coding with a Two-Stage Approach

Recent advances in large language models (LLMs) show potential for clinical applications, such as clinical decision support and trial recommendations. However, the GPT-4 LLM predicts an excessive number of ICD codes for medical coding tasks, leading to high recall but low precision. To tackle this challenge, we introduce LLM-codex, a two-stage approach to predict ICD codes that first generates evidence proposals using an LLM and then employs an LSTM-based verification stage. The LSTM learns from both the LLM's high recall and human expert's high precision, using a custom loss function. Our model is the only approach that simultaneously achieves state-of-the-art results in medical coding accuracy, accuracy on rare codes, and sentence-level evidence identification to support coding decisions without training on human-annotated evidence according to experiments on the MIMIC dataset.

cs.CL↗

arXiv2023

Vision Meets Definitions: Unsupervised Visual Word Sense Disambiguation Incorporating Gloss Information

Visual Word Sense Disambiguation (VWSD) is a task to find the image that most accurately depicts the correct sense of the target word for the given context. Previously, image-text matching models often suffered from recognizing polysemous words. This paper introduces an unsupervised VWSD approach that uses gloss information of an external lexical knowledge-base, especially the sense definitions. Specifically, we suggest employing Bayesian inference to incorporate the sense definitions when sense information of the answer is not provided. In addition, to ameliorate the out-of-dictionary (OOD) issue, we propose a context-aware definition generation with GPT-3. Experimental results show that the VWSD performance significantly increased with our Bayesian inference-based approach. In addition, our context-aware definition generation achieved prominent performance improvement in OOD examples exhibiting better performance than the existing definition generation method.

cs.CL↗

arXiv2023

UMASS_BioNLP at MEDIQA-Chat 2023: Can LLMs generate high-quality synthetic note-oriented doctor-patient conversations?

This paper presents UMASS_BioNLP team participation in the MEDIQA-Chat 2023 shared task for Task-A and Task-C. We focus especially on Task-C and propose a novel LLMs cooperation system named a doctor-patient loop to generate high-quality conversation data sets. The experiment results demonstrate that our approaches yield reasonable performance as evaluated by automatic metrics such as ROUGE, medical concept recall, BLEU, and Self-BLEU. Furthermore, we conducted a comparative analysis between our proposed method and ChatGPT and GPT-4. This analysis also investigates the potential of utilizing cooperation LLMs to generate high-quality datasets.

cs.CL↗

arXiv2023

Interpretable Math Word Problem Solution Generation Via Step-by-step Planning

Solutions to math word problems (MWPs) with step-by-step explanations are valuable, especially in education, to help students better comprehend problem-solving strategies. Most existing approaches only focus on obtaining the final correct answer. A few recent approaches leverage intermediate solution steps to improve final answer correctness but often cannot generate coherent steps with a clear solution strategy. Contrary to existing work, we focus on improving the correctness and coherence of the intermediate solutions steps. We propose a step-by-step planning approach for intermediate solution generation, which strategically plans the generation of the next solution step based on the MWP and the previous solution steps. Our approach first plans the next step by predicting the necessary math operation needed to proceed, given history steps, then generates the next step, token-by-token, by prompting a language model with the predicted math operation. Experiments on the GSM8K dataset demonstrate that our approach improves the accuracy and interpretability of the solution on both automatic metrics and human evaluation.

cs.CL↗

arXiv2023

Context Variance Evaluation of Pretrained Language Models for Prompt-based Biomedical Knowledge Probing

Pretrained language models (PLMs) have motivated research on what kinds of knowledge these models learn. Fill-in-the-blanks problem (e.g., cloze tests) is a natural approach for gauging such knowledge. BioLAMA generates prompts for biomedical factual knowledge triples and uses the Top-k accuracy metric to evaluate different PLMs' knowledge. However, existing research has shown that such prompt-based knowledge probing methods can only probe a lower bound of knowledge. Many factors like prompt-based probing biases make the LAMA benchmark unreliable and unstable. This problem is more prominent in BioLAMA. The severe long-tailed distribution in vocabulary and large-N-M relation make the performance gap between LAMA and BioLAMA remain notable. To address these, we introduce context variance into the prompt generation and propose a new rank-change-based evaluation metric. Different from the previous known-unknown evaluation criteria, we propose the concept of "Misunderstand" in LAMA for the first time. Through experiments on 12 PLMs, our context variance prompts and Understand-Confuse-Misunderstand (UCM) metric makes BioLAMA more friendly to large-N-M relations and rare relations. We also conducted a set of control experiments to disentangle "understand" from just "read and copy".

cs.CL↗

arXiv2023

Nanoparticles Passive Targeting Allows Optical Imaging of Bone Diseases

Bone health related skeletal disorders are commonly diagnosed by X-ray imaging, but the radiation limits its use. Light excitation and optical imaging through the near-infrared-II window (NIR-II, 1000-1700 nm) can penetrate deep tissues without radiation risk, but the targeting of contrast agent is non-specific. Here, we report that lanthanide-doped nanocrystals can be passively transported by endothelial cells and macrophages from the blood vessels into bone marrow microenvironment. We found that this passive targeting scheme can be effective for longer than two months. We therefore developed an intravital 3D and high-resolution planar imaging instrumentation for bone disease diagnosis. We demonstrated the regular monitoring of 1 mm bone defects for over 10 days, with resolution similar to X-ray imaging result, but more flexible use in prognosis. Moreover, the passive targeting can be used to reveal the early onset inflammation at the joints as the synovitis in the early stage of rheumatoid arthritis. Furthermore, the proposed method is comparable to μCT in recognizing symptoms of osteoarthritis, including the mild hyperostosis in femur which is ~100 μm thicker than normal, and the growth of millimeter-scale osteophyte in the knee joint, which further proves the power and universality of our approach in diagnosis of bone diseases

physics.bio-ph↗

arXiv2022

Associations Between Natural Language Processing (NLP) Enriched Social Determinants of Health and Suicide Death among US Veterans

Importance: Social determinants of health (SDOH) are known to be associated with increased risk of suicidal behaviors, but few studies utilized SDOH from unstructured electronic health record (EHR) notes. Objective: To investigate associations between suicide and recent SDOH, identified using structured and unstructured data. Design: Nested case-control study. Setting: EHR data from the US Veterans Health Administration (VHA). Participants: 6,122,785 Veterans who received care in the US VHA between October 1, 2010, and September 30, 2015. Exposures: Occurrence of SDOH over a maximum span of two years compared with no occurrence of SDOH. Main Outcomes and Measures: Cases of suicide deaths were matched with 4 controls on birth year, cohort entry date, sex, and duration of follow-up. We developed an NLP system to extract SDOH from unstructured notes. Structured data, NLP on unstructured data, and combining them yielded six, eight and nine SDOH respectively. Adjusted odds ratios (aORs) and 95% confidence intervals (CIs) were estimated using conditional logistic regression. Results: In our cohort, 8,821 Veterans committed suicide during 23,725,382 person-years of follow-up (incidence rate 37.18/100,000 person-years). Our cohort was mostly male (92.23%) and white (76.99%). Across the five common SDOH as covariates, NLP-extracted SDOH, on average, covered 80.03% of all SDOH occurrences. All SDOH, measured by structured data and NLP, were significantly associated with increased risk of suicide. The SDOH with the largest effects was legal problems (aOR=2.66, 95% CI=.46-2.89), followed by violence (aOR=2.12, 95% CI=1.98-2.27). NLP-extracted and structured SDOH were also associated with suicide. Conclusions and Relevance: NLP-extracted SDOH were always significantly associated with increased risk of suicide among Veterans, suggesting the potential of NLP in public health studies.

cs.CL↗

arXiv2022

Enhancing the prediction of disease outcomes using electronic health records and pretrained deep learning models

Question: Can an encoder-decoder architecture pretrained on a large dataset of longitudinal electronic health records improves patient outcome predictions? Findings: In this prognostic study of 6.8 million patients, our denoising sequence-to-sequence prediction model of multiple outcomes outperformed state-of-the-art models scuh pretrained BERT on a broad range of patient outcomes, including intentional self-harm and pancreatic cancer. Meaning: Deep bidirectional and autoregressive representation improves patient outcome prediction.

cs.AI↗