Jie Yang

Yining Hua, Hang Jiang, Shixu Lin et al. · amazon-science, harvard

Understanding public discourse on emergency use of unproven therapeutics is crucial for monitoring safe use and combating misinformation. We developed a natural language processing-based pipeline to comprehend public perceptions of and stances on coronavirus disease 2019 (COVID-19)-related drugs on Twitter over time. This retrospective study included 609,189 US-based tweets from January 29, 2020, to November 30, 2021, about four drugs that garnered significant public attention during the COVID-19 pandemic: (1) Hydroxychloroquine and Ivermectin, therapies with anecdotal evidence; and (2) Molnupiravir and Remdesivir, FDA-approved treatments for eligible patients. Time-trend analysis was employed to understand popularity trends and related events. Content and demographic analyses were conducted to explore potential rationales behind people's stances on each drug. Time-trend analysis indicated that Hydroxychloroquine and Ivermectin were discussed more than Molnupiravir and Remdesivir, particularly during COVID-19 surges. Hydroxychloroquine and Ivermectin discussions were highly politicized, related to conspiracy theories, hearsay, and celebrity influences. The distribution of stances between the two major US political parties was significantly different (P < .001); Republicans were more likely to support Hydroxychloroquine (55%) and Ivermectin (30%) than Democrats. People with healthcare backgrounds tended to oppose Hydroxychloroquine (7%) more than the general population, while the general population was more likely to support Ivermectin (14%). Our study found that social media users have varying perceptions and stances on off-label versus FDA-authorized drug use at different stages of COVID-19. This indicates that health systems, regulatory agencies, and policymakers should design tailored strategies to monitor and reduce misinformation to promote safe drug use.

Jiageng Wu, Xian Wu, Yining Hua et al. · harvard

The COVID-19 pandemic has caused substantial damage to global health. Even though three years have passed, the world continues to struggle with the virus. Concerns are growing about the impact of COVID-19 on the mental health of infected individuals, who are more likely to experience depression, which can have long-lasting consequences for both the affected individuals and the world. Detection and intervention at an early stage can reduce the risk of depression in COVID-19 patients. In this paper, we investigated the relationship between COVID-19 infection and depression through social media analysis. Firstly, we managed a dataset of COVID-19 patients that contains information about their social media activity both before and after infection. Secondly,We conducted an extensive analysis of this dataset to investigate the characteristic of COVID-19 patients with a higher risk of depression. Thirdly, we proposed a deep neural network for early prediction of depression risk. This model considers daily mood swings as a psychiatric signal and incorporates textual and emotional characteristics via knowledge distillation. Experimental results demonstrate that our proposed framework outperforms baselines in detecting depression risk, with an AUROC of 0.9317 and an AUPRC of 0.8116. Our model has the potential to enable public health organizations to initiate prompt intervention with high-risk patients

Yuncheng Yang, Yulei Qin, Tong Wu et al.

The cultivation of expertise for large language models (LLMs) to solve tasks of specific areas often requires special-purpose tuning with calibrated behaviors on the expected stable outputs. To avoid huge cost brought by manual preparation of instruction datasets and training resources up to hundreds of hours, the exploitation of open knowledge including a wealth of low rank adaptation (LoRA) models and instruction datasets serves as a good starting point. However, existing methods on model and data selection focus on the performance of general-purpose capabilities while neglecting the knowledge gap exposed in domain-specific deployment. In the present study, we propose to bridge such gap by introducing few human-annotated samples (i.e., K-shot) for advancing task expertise of LLMs with open knowledge. Specifically, we develop an efficient and scalable pipeline to cost-efficiently produce task experts where K-shot data intervene in selecting the most promising expert candidates and the task-relevant instructions. A mixture-of-expert (MoE) system is built to make the best use of individual-yet-complementary knowledge between multiple experts. We unveil the two keys to the success of a MoE system, 1) the abidance by K-shot, and 2) the insistence on diversity. For the former, we ensure that models that truly possess problem-solving abilities on K-shot are selected rather than those blind guessers. Besides, during data selection, instructions that share task-relevant contexts with K-shot are prioritized. For the latter, we highlight the diversity of constituting experts and that of the fine-tuning instructions throughout the model and data selection process. Extensive experimental results confirm the superiority of our approach over existing methods on utilization of open knowledge across various tasks. Our codes will be available at https://github.com/Yaphabates/Rocket.

Jie Yang, Yue Zhang, Linwei Li et al.

In this paper, we introduce \textsc{Yedda}, a lightweight but efficient and comprehensive open-source tool for text span annotation. \textsc{Yedda} provides a systematic solution for text span annotation, ranging from collaborative user annotation to administrator evaluation and analysis. It overcomes the low efficiency of traditional text annotation tools by annotating entities through both command line and shortcut keys, which are configurable with custom labels. \textsc{Yedda} also gives intelligent recommendations by learning the up-to-date annotated text. An administrator client is developed to evaluate annotation quality of multiple annotators and generate detailed comparison report for each annotator pair. Experiments show that the proposed system can reduce the annotation time by half compared with existing annotation tools. And the annotation time can be further compressed by 16.47\% through intelligent recommendation.

Diji Yang, Jinmeng Rao, Kezhen Chen et al.

Although the Retrieval-Augmented Generation (RAG) paradigms can use external knowledge to enhance and ground the outputs of Large Language Models (LLMs) to mitigate generative hallucinations and static knowledge base problems, they still suffer from limited flexibility in adopting Information Retrieval (IR) systems with varying capabilities, constrained interpretability during the multi-round retrieval process, and a lack of end-to-end optimization. To address these challenges, we propose a novel LLM-centric approach, IM-RAG, that integrates IR systems with LLMs to support multi-round RAG through learning Inner Monologues (IM, i.e., the human inner voice that narrates one's thoughts). During the IM process, the LLM serves as the core reasoning model (i.e., Reasoner) to either propose queries to collect more information via the Retriever or to provide a final answer based on the conversational context. We also introduce a Refiner that improves the outputs from the Retriever, effectively bridging the gap between the Reasoner and IR modules with varying capabilities and fostering multi-round communications. The entire IM process is optimized via Reinforcement Learning (RL) where a Progress Tracker is incorporated to provide mid-step rewards, and the answer prediction is further separately optimized via Supervised Fine-Tuning (SFT). We conduct extensive experiments with the HotPotQA dataset, a popular benchmark for retrieval-based, multi-step question-answering. The results show that our approach achieves state-of-the-art (SOTA) performance while providing high flexibility in integrating IR modules as well as strong interpretability exhibited in the learned inner monologues.

Jiageng WU, Xian Wu, Jie Yang · harvard

Clinical reasoning refers to the cognitive process that physicians employ in evaluating and managing patients. This process typically involves suggesting necessary examinations, diagnosing patients' diseases, and deciding on appropriate therapies, etc. Accurate clinical reasoning requires extensive medical knowledge and rich clinical experience, setting a high bar for physicians. This is particularly challenging in developing countries due to the overwhelming number of patients and limited physician resources, contributing significantly to global health inequity and necessitating automated clinical reasoning approaches. Recently, the emergence of large language models (LLMs) such as ChatGPT and GPT-4 have demonstrated their potential in clinical reasoning. However, these LLMs are prone to hallucination problems, and the reasoning process of LLMs may not align with the clinical decision path of physicians. In this study, we introduce a novel framework, In-Context Padding (ICP), designed to enhance LLMs with medical knowledge. Specifically, we infer critical clinical reasoning elements (referred to as knowledge seeds) and use these as anchors to guide the generation process of LLMs. Experiments on two clinical question datasets demonstrate that ICP significantly improves the clinical reasoning ability of LLMs.

Siyu Wang, Cailian Chen, Xinyi Le et al.

Computer-aided design (CAD) significantly enhances the efficiency, accuracy, and innovation of design processes by enabling precise 2D and 3D modeling, extensive analysis, and optimization. Existing methods for creating CAD models rely on latent vectors or point clouds, which are difficult to obtain, and storage costs are substantial. Recent advances in Multimodal Large Language Models (MLLMs) have inspired researchers to use natural language instructions and images for CAD model construction. However, these models still struggle with inferring accurate 3D spatial location and orientation, leading to inaccuracies in determining the spatial 3D starting points and extrusion directions for constructing geometries. This work introduces CAD-GPT, a CAD synthesis method with spatial reasoning-enhanced MLLM that takes either a single image or a textual description as input. To achieve precise spatial inference, our approach introduces a 3D Modeling Spatial Mechanism. This method maps 3D spatial positions and 3D sketch plane rotation angles into a 1D linguistic feature space using a specialized spatial unfolding mechanism, while discretizing 2D sketch coordinates into an appropriate planar space to enable precise determination of spatial starting position, sketch orientation, and 2D sketch coordinate translations. Extensive experiments demonstrate that CAD-GPT consistently outperforms existing state-of-the-art methods in CAD model synthesis, both quantitatively and qualitatively.

Di Wu, Linghao Bu, Yifei Jia et al.

Recent achievements in implantable brain-computer interfaces (iBCIs) have demonstrated the potential to decode cognitive and motor behaviors with intracranial brain recordings; however, individual physiological and electrode implantation heterogeneities have constrained current approaches to neural decoding within single individuals, rendering interindividual neural decoding elusive. Here, we present Multi-individual Brain Region-Aggregated Network (MIBRAIN), a neural decoding framework that constructs a whole functional brain network model by integrating intracranial neurophysiological recordings across multiple individuals. MIBRAIN leverages self-supervised learning to derive generalized neural prototypes and supports group-level analysis of brain-region interactions and inter-subject neural synchrony. To validate our framework, we recorded stereoelectroencephalography (sEEG) signals from a cohort of individuals performing Mandarin syllable articulation. Both real-time online and offline decoding experiments demonstrated significant improvements in both audible and silent articulation decoding, enhanced decoding accuracy with increased multi-subject data integration, and effective generalization to unseen subjects. Furthermore, neural predictions for regions without direct electrode coverage were validated against authentic neural data. Overall, this framework paves the way for robust neural decoding across individuals and offers insights for practical clinical applications.

Jie Yang, Chenyang Gu, Zixuan Liu

Multimodal recommender systems enhance personalized recommendations in e-commerce and online advertising by integrating visual, textual, and user-item interaction data. However, existing methods often overlook two critical biases: (i) modal confounding, where latent factors (e.g., brand style or product category) simultaneously drive multiple modalities and influence user preference, leading to spurious feature-preference associations; (ii) interaction bias, where genuine user preferences are mixed with noise from exposure effects and accidental clicks. To address these challenges, we propose a Causal-inspired multimodal Recommendation framework. Specifically, we introduce a dual-channel cross-modal diffusion module to identify hidden modal confounders, utilize back-door adjustment with hierarchical matching and vector-quantized codebooks to block confounding paths, and apply front-door adjustment combined with causal topology reconstruction to build a deconfounded causal subgraph. Extensive experiments on three real-world e-commerce datasets demonstrate that our method significantly outperforms state-of-the-art baselines while maintaining strong interpretability.

Jie Yang, Chang Su, Yuhan Zhang et al.

The advancement of sensing technology has driven the widespread application of high-dimensional data. However, issues such as missing entries during acquisition and transmission negatively impact the accuracy of subsequent tasks. Tensor reconstruction aims to recover the underlying complete data from under-sampled observed data by exploring prior information in high-dimensional data. However, due to insufficient exploration, reconstruction methods still face challenges when sampling rate is extremely low. This work proposes a tensor reconstruction method integrating multiple priors to comprehensively exploit the inherent structure of the data. Specifically, the method combines learnable tensor decomposition to enforce low-rank constraints of the reconstructed data, a pre-trained convolutional neural network for smoothing and denoising, and block-matching and 3D filtering regularization to enhance the non-local similarity in the reconstructed data. An alternating direction method of the multipliers algorithm is designed to decompose the resulting optimization problem into three subproblems for efficient resolution. Extensive experiments on color images, hyperspectral images, and grayscale videos datasets demonstrate the superiority of our method in extreme cases as compared with state-of-the-art methods.

Xiaoyuan Guo, Kezhen Chen, Jinmeng Rao et al.

We present LOWA, a novel method for localizing objects with attributes effectively in the wild. It aims to address the insufficiency of current open-vocabulary object detectors, which are limited by the lack of instance-level attribute classification and rare class names. To train LOWA, we propose a hybrid vision-language training strategy to learn object detection and recognition with class names as well as attribute information. With LOWA, users can not only detect objects with class names, but also able to localize objects by attributes. LOWA is built on top of a two-tower vision-language architecture and consists of a standard vision transformer as the image encoder and a similar transformer as the text encoder. To learn the alignment between visual and text inputs at the instance level, we train LOWA with three training steps: object-level training, attribute-aware learning, and free-text joint training of objects and attributes. This hybrid training strategy first ensures correct object detection, then incorporates instance-level attribute information, and finally balances the object class and attribute sensitivity. We evaluate our model performance of attribute classification and attribute localization on the Open-Vocabulary Attribute Detection (OVAD) benchmark and the Visual Attributes in the Wild (VAW) dataset, and experiments indicate strong zero-shot performance. Ablation studies additionally demonstrate the effectiveness of each training step of our approach.

Jiageng Wu, Xian Wu, Zhaopeng Qiu et al.

$\textbf{Objectives}$: Large Language Models (LLMs) such as ChatGPT and Med-PaLM have excelled in various medical question-answering tasks. However, these English-centric models encounter challenges in non-English clinical settings, primarily due to limited clinical knowledge in respective languages, a consequence of imbalanced training corpora. We systematically evaluate LLMs in the Chinese medical context and develop a novel in-context learning framework to enhance their performance. $\textbf{Materials and Methods}$: The latest China National Medical Licensing Examination (CNMLE-2022) served as the benchmark. We collected 53 medical books and 381,149 medical questions to construct the medical knowledge base and question bank. The proposed Knowledge and Few-shot Enhancement In-context Learning (KFE) framework leverages the in-context learning ability of LLMs to integrate diverse external clinical knowledge sources. We evaluated KFE with ChatGPT(GPT3.5), GPT4, Baichuan2(BC2)-7B, and BC2-13B in CNMLE-2022 and investigated the effectiveness of different pathways for incorporating LLMs with medical knowledge from 7 perspectives. $\textbf{Results}$: Directly applying ChatGPT failed to qualify for the CNMLE-2022 at a score of 51. Cooperated with the KFE, the LLMs with varying sizes yielded consistent and significant improvements. The ChatGPT's performance surged to 70.04 and GPT-4 achieved the highest score of 82.59. This surpasses the qualification threshold (60) and exceeds the average human score of 68.70. It also enabled a smaller BC2-13B to pass the examination, showcasing the great potential in low-resource settings. $\textbf{Conclusion}$: By synergizing medical knowledge through in-context learning, LLM can extend clinical insight beyond language barriers, significantly reducing language-related disparities of LLM applications and ensuring global benefit in healthcare.

Shunkai Zhu, Jingyi Wang, Jun Sun et al.

Fuzzing is one of the prevailing methods for vulnerability detection. However, even state-of-the-art fuzzing methods become ineffective after some period of time, i.e., the coverage hardly improves as existing methods are ineffective to focus the attention of fuzzing on covering the hard-to-trigger program paths. In other words, they cannot generate inputs that can break the bottleneck due to the fundamental difficulty in capturing the complex relations between the test inputs and program coverage. In particular, existing fuzzers suffer from the following main limitations: 1) lacking an overall analysis of the program to identify the most "rewarding" seeds, and 2) lacking an effective mutation strategy which could continuously select and mutates the more relevant "bytes" of the seeds. In this work, we propose an approach called ATTuzz to address these two issues systematically. First, we propose a lightweight dynamic analysis technique which estimates the "reward" of covering each basic block and selects the most rewarding seeds accordingly. Second, we mutate the selected seeds according to a neural network model which predicts whether a certain "rewarding" block will be covered given certain mutation on certain bytes of a seed. The model is a deep learning model equipped with attention mechanism which is learned and updated periodically whilst fuzzing. Our evaluation shows that ATTuzz significantly outperforms 5 state-of-the-art grey-box fuzzers on 13 popular real-world programs at achieving higher edge coverage and finding new bugs. In particular, ATTuzz achieved 2X edge coverage and 4X bugs detected than AFL over 24-hour runs. Moreover, ATTuzz persistently improves the edge coverage in the long run, i.e., achieving 50% more coverage than AFL in 5 days.

Jie Yang, Yue Zhang, Shuailong Liang

We investigate a lattice LSTM network for Chinese word segmentation (CWS) to utilize words or subwords. It integrates the character sequence features with all subsequences information matched from a lexicon. The matched subsequences serve as information shortcut tunnels which link their start and end characters directly. Gated units are used to control the contribution of multiple input links. Through formula derivation and comparison, we show that the lattice LSTM is an extension of the standard LSTM with the ability to take multiple inputs. Previous lattice LSTM model takes word embeddings as the lexicon input, we prove that subword encoding can give the comparable performance and has the benefit of not relying on any external segmentor. The contribution of lattice LSTM comes from both lexicon and pretrained embeddings information, we find that the lexicon information contributes more than the pretrained embeddings information through controlled experiments. Our experiments show that the lattice structure with subword encoding gives competitive or better results with previous state-of-the-art methods on four segmentation benchmarks. Detailed analyses are conducted to compare the performance of word encoding and subword encoding in lattice LSTM. We also investigate the performance of lattice LSTM structure under different circumstances and when this model works or fails.

Jie Yang, Yue Zhang

This paper describes NCRF++, a toolkit for neural sequence labeling. NCRF++ is designed for quick implementation of different neural sequence labeling models with a CRF inference layer. It provides users with an inference for building the custom model structure through configuration file with flexible neural feature design and utilization. Built on PyTorch, the core operations are calculated in batch, making the toolkit efficient with the acceleration of GPU. It also includes the implementations of most state-of-the-art neural sequence labeling models such as LSTM-CRF, facilitating reproducing and refinement on those methods.

Jie Yang, Shuailong Liang, Yue Zhang

We investigate the design challenges of constructing effective and efficient neural sequence labeling systems, by reproducing twelve neural sequence labeling models, which include most of the state-of-the-art structures, and conduct a systematic model comparison on three benchmarks (i.e. NER, Chunking, and POS tagging). Misconceptions and inconsistent conclusions in existing literature are examined and clarified under statistical experiments. In the comparison and analysis process, we reach several practical conclusions which can be useful to practitioners.

Yue Zhang, Jie Yang

We investigate a lattice-structured LSTM model for Chinese NER, which encodes a sequence of input characters as well as all potential words that match a lexicon. Compared with character-based methods, our model explicitly leverages word and word sequence information. Compared with word-based methods, lattice LSTM does not suffer from segmentation errors. Gated recurrent cells allow our model to choose the most relevant characters and words from a sentence for better NER results. Experiments on various datasets show that lattice LSTM outperforms both word-based and character-based LSTM baselines, achieving the best results.

Jie Yang, Zhiyang Teng, Meishan Zhang et al.

Neural network models have recently received heated research attention in the natural language processing community. Compared with traditional models with discrete features, neural models have two main advantages. First, they take low-dimensional, real-valued embedding vectors as inputs, which can be trained over large raw data, thereby addressing the issue of feature sparsity in discrete models. Second, deep neural networks can be used to automatically combine input features, and including non-local features that capture semantic patterns that cannot be expressed using discrete indicator features. As a result, neural network models have achieved competitive accuracies compared with the best discrete models for a range of NLP tasks. On the other hand, manual feature templates have been carefully investigated for most NLP tasks over decades and typically cover the most useful indicator pattern for solving the problems. Such information can be complementary the features automatically induced from neural networks, and therefore combining discrete and neural features can potentially lead to better accuracy compared with models that leverage discrete or neural features only. In this paper, we systematically investigate the effect of discrete and neural feature combination for a range of fundamental NLP tasks based on sequence labeling, including word segmentation, POS tagging and named entity recognition for Chinese and English, respectively. Our results on standard benchmarks show that state-of-the-art neural models can give accuracies comparable to the best discrete models in the literature for most tasks and combing discrete and neural features unanimously yield better results.

Jie Yang, Yue Zhang, Fei Dong

We propose a neural reranking system for named entity recognition (NER). The basic idea is to leverage recurrent neural network models to learn sentence-level patterns that involve named entity mentions. In particular, given an output sentence produced by a baseline NER model, we replace all entity mentions, such as \textit{Barack Obama}, into their entity types, such as \textit{PER}. The resulting sentence patterns contain direct output information, yet is less sparse without specific named entities. For example, "PER was born in LOC" can be such a pattern. LSTM and CNN structures are utilised for learning deep representations of such sentences for reranking. Results show that our system can significantly improve the NER accuracies over two different baselines, giving the best reported results on a standard benchmark.

Hongmin Wang, Yue Zhang, GuangYong Leonard Chan et al.

Singlish can be interesting to the ACL community both linguistically as a major creole based on English, and computationally for information extraction and sentiment analysis of regional social media. We investigate dependency parsing of Singlish by constructing a dependency treebank under the Universal Dependencies scheme, and then training a neural network model by integrating English syntactic knowledge into a state-of-the-art parser trained on the Singlish treebank. Results show that English knowledge can lead to 25% relative error reduction, resulting in a parser of 84.47% accuracies. To the best of our knowledge, we are the first to use neural stacking to improve cross-lingual dependency parsing on low-resource languages. We make both our annotation and parser available for further research.

Jie Yang, Yue Zhang, Fei Dong

Neural word segmentation research has benefited from large-scale raw texts by leveraging them for pretraining character and word embeddings. On the other hand, statistical segmentation research has exploited richer sources of external information, such as punctuation, automatic segmentation and POS. We investigate the effectiveness of a range of external training sources for neural word segmentation by building a modular segmentation model, pretraining the most important submodule using rich external sources. Results show that such pretraining significantly improves the model, leading to accuracies competitive to the best methods on six benchmarks.