Qika Lin

Kai He, Rui Mao, Qika Lin et al.

The utilization of large language models (LLMs) in the Healthcare domain has generated both excitement and concern due to their ability to effectively respond to freetext queries with certain professional knowledge. This survey outlines the capabilities of the currently developed LLMs for Healthcare and explicates their development process, with the aim of providing an overview of the development roadmap from traditional Pretrained Language Models (PLMs) to LLMs. Specifically, we first explore the potential of LLMs to enhance the efficiency and effectiveness of various Healthcare applications highlighting both the strengths and limitations. Secondly, we conduct a comparison between the previous PLMs and the latest LLMs, as well as comparing various LLMs with each other. Then we summarize related Healthcare training data, training methods, optimization strategies, and usage. Finally, the unique concerns associated with deploying LLMs in Healthcare settings are investigated, particularly regarding fairness, accountability, transparency and ethics. Our survey provide a comprehensive investigation from perspectives of both computer science and Healthcare specialty. Besides the discussion about Healthcare concerns, we supports the computer science community by compiling a collection of open source resources, such as accessible datasets, the latest methodologies, code implementations, and evaluation benchmarks in the Github. Summarily, we contend that a significant paradigm shift is underway, transitioning from PLMs to LLMs. This shift encompasses a move from discriminative AI approaches to generative AI approaches, as well as a shift from model-centered methodologies to data-centered methodologies. Also, we determine that the biggest obstacle of using LLMs in Healthcare are fairness, accountability, transparency and ethics.

Fangzhi Xu, Qika Lin, Jiawei Han et al.

Logical reasoning consistently plays a fundamental and significant role in the domains of knowledge engineering and artificial intelligence. Recently, Large Language Models (LLMs) have emerged as a noteworthy innovation in natural language processing (NLP). However, the question of whether LLMs can effectively address the task of logical reasoning, which requires gradual cognitive inference similar to human intelligence, remains unanswered. To this end, we aim to bridge this gap and provide comprehensive evaluations in this paper. Firstly, to offer systematic evaluations, we select fifteen typical logical reasoning datasets and organize them into deductive, inductive, abductive and mixed-form reasoning settings. Considering the comprehensiveness of evaluations, we include 3 early-era representative LLMs and 4 trending LLMs. Secondly, different from previous evaluations relying only on simple metrics (e.g., \emph{accuracy}), we propose fine-level evaluations in objective and subjective manners, covering both answers and explanations, including \emph{answer correctness}, \emph{explain correctness}, \emph{explain completeness} and \emph{explain redundancy}. Additionally, to uncover the logical flaws of LLMs, problematic cases will be attributed to five error types from two dimensions, i.e., \emph{evidence selection process} and \emph{reasoning process}. Thirdly, to avoid the influences of knowledge bias and concentrate purely on benchmarking the logical reasoning capability of LLMs, we propose a new dataset with neutral content. Based on the in-depth evaluations, this paper finally forms a general evaluation scheme of logical reasoning capability from six dimensions (i.e., \emph{Correct}, \emph{Rigorous}, \emph{Self-aware}, \emph{Active}, \emph{Oriented} and \emph{No hallucination}). It reflects the pros and cons of LLMs and gives guiding directions for future works.

Fangzhi Xu, Zhiyong Wu, Qiushi Sun et al.

Although Large Language Models (LLMs) demonstrate remarkable ability in processing and generating human-like text, they do have limitations when it comes to comprehending and expressing world knowledge that extends beyond the boundaries of natural language(e.g., chemical molecular formula). Injecting a collection of symbolic data directly into the training of LLMs can be problematic, as it disregards the synergies among different symbolic families and overlooks the need for a balanced mixture of natural and symbolic data. In this work, we tackle these challenges from both a data and framework perspective and introduce Symbol-LLM series models. First, we curated a data collection consisting of 34 tasks and incorporating approximately 20 distinct symbolic families, intending to capture the interrelations and foster synergies between symbols. Then, a two-stage tuning framework succeeds in injecting symbolic knowledge without loss of the generality ability. Extensive experiments on both symbol- and NL-centric tasks demonstrate the balanced and superior performances of Symbol-LLM series models. The project page is https://xufangzhi.github.io/symbol-llm-page/.

Qika Lin, Yifan Zhu, Xin Mei et al.

The rapid development of artificial intelligence has constantly reshaped the field of intelligent healthcare and medicine. As a vital technology, multimodal learning has increasingly garnered interest due to data complementarity, comprehensive modeling form, and great application potential. Currently, numerous researchers are dedicating their attention to this field, conducting extensive studies and constructing abundant intelligent systems. Naturally, an open question arises that has multimodal learning delivered universal intelligence in healthcare? To answer the question, we adopt three unique viewpoints for a holistic analysis. Firstly, we conduct a comprehensive survey of the current progress of medical multimodal learning from the perspectives of datasets, task-oriented methods, and universal foundation models. Based on them, we further discuss the proposed question from five issues to explore the real impacts of advanced techniques in healthcare, from data and technologies to performance and ethics. The answer is that current technologies have NOT achieved universal intelligence and there remains a significant journey to undertake. Finally, in light of the above reviews and discussions, we point out ten potential directions for exploration towards the goal of universal intelligence in healthcare.

Fangzhi Xu, Jun Liu, Qika Lin et al.

Machine reading comprehension has aroused wide concerns, since it explores the potential of model for text understanding. To further equip the machine with the reasoning capability, the challenging task of logical reasoning is proposed. Previous works on logical reasoning have proposed some strategies to extract the logical units from different aspects. However, there still remains a challenge to model the long distance dependency among the logical units. Also, it is demanding to uncover the logical structures of the text and further fuse the discrete logic to the continuous text embedding. To tackle the above issues, we propose an end-to-end model Logiformer which utilizes a two-branch graph transformer network for logical reasoning of text. Firstly, we introduce different extraction strategies to split the text into two sets of logical units, and construct the logical graph and the syntax graph respectively. The logical graph models the causal relations for the logical branch while the syntax graph captures the co-occurrence relations for the syntax branch. Secondly, to model the long distance dependency, the node sequence from each graph is fed into the fully connected graph transformer structures. The two adjacent matrices are viewed as the attention biases for the graph transformer layers, which map the discrete logical structures to the continuous text embedding space. Thirdly, a dynamic gate mechanism and a question-aware self-attention module are introduced before the answer prediction to update the features. The reasoning process provides the interpretability by employing the logical units, which are consistent with human cognition. The experimental results show the superiority of our model, which outperforms the state-of-the-art single model on two logical reasoning benchmarks.

Fangzhi Xu, Jun Liu, Qika Lin et al.

Logical reasoning task involves diverse types of complex reasoning over text, based on the form of multiple-choice question answering. Given the context, question and a set of options as the input, previous methods achieve superior performances on the full-data setting. However, the current benchmark dataset has the ideal assumption that the reasoning type distribution on the train split is close to the test split, which is inconsistent with many real application scenarios. To address it, there remain two problems to be studied: (1) How is the zero-shot capability of the models (train on seen types and test on unseen types)? (2) How to enhance the perception of reasoning types for the models? For problem 1, we propose a new benchmark for generalized zero-shot logical reasoning, named ZsLR. It includes six splits based on the three type sampling strategies. For problem 2, a type-aware model TaCo is proposed. It utilizes both the heuristic input reconstruction and the contrastive learning to improve the type perception in the global representation. Extensive experiments on both the zero-shot and full-data settings prove the superiority of TaCo over the state-of-the-art methods. Also, we experiment and verify the generalization capability of TaCo on other logical reasoning dataset.

Haoran Luo, Haihong E, Guanting Chen et al. · mit

Standard Retrieval-Augmented Generation (RAG) relies on chunk-based retrieval, whereas GraphRAG advances this approach by graph-based knowledge representation. However, existing graph-based RAG approaches are constrained by binary relations, as each edge in an ordinary graph connects only two entities, limiting their ability to represent the n-ary relations (n >= 2) in real-world knowledge. In this work, we propose HyperGraphRAG, a novel hypergraph-based RAG method that represents n-ary relational facts via hyperedges, and consists of knowledge hypergraph construction, retrieval, and generation. Experiments across medicine, agriculture, computer science, and law demonstrate that HyperGraphRAG outperforms both standard RAG and previous graph-based RAG methods in answer accuracy, retrieval efficiency, and generation quality. Our data and code are publicly available at https://github.com/LHRLAB/HyperGraphRAG.

Haoran Luo, Haihong E, Yikai Guo et al. · mit

Knowledge Base Question Answering (KBQA) aims to answer natural language questions with a large-scale structured knowledge base (KB). Despite advancements with large language models (LLMs), KBQA still faces challenges in weak KB awareness, imbalance between effectiveness and efficiency, and high reliance on annotated data. To address these challenges, we propose KBQA-o1, a novel agentic KBQA method with Monte Carlo Tree Search (MCTS). It introduces a ReAct-based agent process for stepwise logical form generation with KB environment exploration. Moreover, it employs MCTS, a heuristic search method driven by policy and reward models, to balance agentic exploration's performance and search space. With heuristic exploration, KBQA-o1 generates high-quality annotations for further improvement by incremental fine-tuning. Experimental results show that KBQA-o1 outperforms previous low-resource KBQA methods with limited annotated data, boosting Llama-3.1-8B model's GrailQA F1 performance to 78.5% compared to 48.5% of the previous sota method with GPT-3.5-turbo. Our code is publicly available.

Luwei Xiao, Rui Mao, Shuai Zhao et al.

Multimodal aspect-based sentiment classification (MASC) is an emerging task due to an increase in user-generated multimodal content on social platforms, aimed at predicting sentiment polarity toward specific aspect targets (i.e., entities or attributes explicitly mentioned in text-image pairs). Despite extensive efforts and significant achievements in existing MASC, substantial gaps remain in understanding fine-grained visual content and the cognitive rationales derived from semantic content and impressions (cognitive interpretations of emotions evoked by image content). In this study, we present Chimera: a cognitive and aesthetic sentiment causality understanding framework to derive fine-grained holistic features of aspects and infer the fundamental drivers of sentiment expression from both semantic perspectives and affective-cognitive resonance (the synergistic effect between emotional responses and cognitive interpretations). Specifically, this framework first incorporates visual patch features for patch-word alignment. Meanwhile, it extracts coarse-grained visual features (e.g., overall image representation) and fine-grained visual regions (e.g., aspect-related regions) and translates them into corresponding textual descriptions (e.g., facial, aesthetic). Finally, we leverage the sentimental causes and impressions generated by a large language model (LLM) to enhance the model's awareness of sentimental cues evoked by semantic content and affective-cognitive resonance. Experimental results on standard MASC datasets demonstrate the effectiveness of the proposed model, which also exhibits greater flexibility to MASC compared to LLMs such as GPT-4o. We have publicly released the complete implementation and dataset at https://github.com/Xillv/Chimera

Qika Lin, Tianzhe Zhao, Kai He et al.

Due to the presence of the natural gap between Knowledge Graph (KG) structures and the natural language, the effective integration of holistic structural information of KGs with Large Language Models (LLMs) has emerged as a significant question. To this end, we propose a two-stage framework to learn and apply quantized codes for each entity, aiming for the seamless integration of KGs with LLMs. Firstly, a self-supervised quantized representation (SSQR) method is proposed to compress both KG structural and semantic knowledge into discrete codes (\ie, tokens) that align the format of language sentences. We further design KG instruction-following data by viewing these learned codes as features to directly input to LLMs, thereby achieving seamless integration. The experiment results demonstrate that SSQR outperforms existing unsupervised quantized methods, producing more distinguishable codes. Further, the fine-tuned LLaMA2 and LLaMA3.1 also have superior performance on KG link prediction and triple classification tasks, utilizing only 16 tokens per entity instead of thousands in conventional prompting methods.

Tianzhe Zhao, Jiaoyan Chen, Yanchi Ru et al.

Knowledge graph embedding (KGE) methods have achieved great success in handling various knowledge graph (KG) downstream tasks. However, KGE methods may learn biased representations on low-quality KGs that are prevalent in the real world. Some recent studies propose adversarial attacks to investigate the vulnerabilities of KGE methods, but their attackers are target-oriented with the KGE method and the target triples to predict are given in advance, which lacks practicability. In this work, we explore untargeted attacks with the aim of reducing the global performances of KGE methods over a set of unknown test triples and conducting systematic analyses on KGE robustness. Considering logic rules can effectively summarize the global structure of a KG, we develop rule-based attack strategies to enhance the attack efficiency. In particular,we consider adversarial deletion which learns rules, applying the rules to score triple importance and delete important triples, and adversarial addition which corrupts the learned rules and applies them for negative triples as perturbations. Extensive experiments on two datasets over three representative classes of KGE methods demonstrate the effectiveness of our proposed untargeted attacks in diminishing the link prediction results. And we also find that different KGE methods exhibit different robustness to untargeted attacks. For example, the robustness of methods engaged with graph neural networks and logic rules depends on the density of the graph. But rule-based methods like NCRL are easily affected by adversarial addition attacks to capture negative rules

Ling Huang, Yucheng Xing, Qika Lin et al.

Multimodal survival analysis aims to combine heterogeneous data sources (e.g., clinical, imaging, text, genomics) to improve the prediction quality of survival outcomes. However, this task is particularly challenging due to high heterogeneity and noise across data sources, which vary in structure, distribution, and context. Additionally, the ground truth is often censored (uncertain) due to incomplete follow-up data. In this paper, we propose a novel evidential multimodal survival fusion model, EsurvFusion, designed to combine multimodal data at the decision level through an evidence-based decision fusion layer that jointly addresses both data and model uncertainty while incorporating modality-level reliability. Specifically, EsurvFusion first models unimodal data with newly introduced Gaussian random fuzzy numbers, producing unimodal survival predictions along with corresponding aleatoric and epistemic uncertainties. It then estimates modality-level reliability through a reliability discounting layer to correct the misleading impact of noisy data modalities. Finally, a multimodal evidence-based fusion layer is introduced to combine the discounted predictions to form a unified, interpretable multimodal survival analysis model, revealing each modality's influence based on the learned reliability coefficients. This is the first work that studies multimodal survival analysis with both uncertainty and reliability. Extensive experiments on four multimodal survival datasets demonstrate the effectiveness of our model in handling high heterogeneity data, establishing new state-of-the-art on several benchmarks.

Jian Zhang, Changlin Yang, Haiping Zhu et al.

Document-level Event Argument Extraction (DEAE) aims to identify arguments and their specific roles from an unstructured document. The advanced approaches on DEAE utilize prompt-based methods to guide pre-trained language models (PLMs) in extracting arguments from input documents. They mainly concentrate on establishing relations between triggers and entity mentions within documents, leaving two unresolved problems: a) independent modeling of entity mentions; b) document-prompt isolation. To this end, we propose a semantic mention Graph Augmented Model (GAM) to address these two problems in this paper. Firstly, GAM constructs a semantic mention graph that captures relations within and between documents and prompts, encompassing co-existence, co-reference and co-type relations. Furthermore, we introduce an ensembled graph transformer module to address mentions and their three semantic relations effectively. Later, the graph-augmented encoder-decoder module incorporates the relation-specific graph into the input embedding of PLMs and optimizes the encoder section with topology information, enhancing the relations comprehensively. Extensive experiments on the RAMS and WikiEvents datasets demonstrate the effectiveness of our approach, surpassing baseline methods and achieving a new state-of-the-art performance.

Zhihui Zhang, Luanyuan Dai, Qika Lin et al.

Large-scale multi-modal models have demonstrated remarkable performance across various visual recognition tasks by leveraging extensive paired multi-modal training data. However, in real-world applications, the presence of missing or incomplete modality inputs often leads to significant performance degradation. Recent research has focused on prompt-based strategies to tackle this issue; however, existing methods are hindered by two major limitations: (1) static prompts lack the flexibility to adapt to varying missing-data conditions, and (2) basic prompt-tuning methods struggle to ensure reliable performance when critical modalities are missing.To address these challenges, we propose a novel Synergistic Prompting (SyP) framework for robust visual recognition with missing modalities. The proposed SyP introduces two key innovations: (I) a Dynamic Adapter, which computes adaptive scaling factors to dynamically generate prompts, replacing static parameters for flexible multi-modal adaptation, and (II) a Synergistic Prompting Strategy, which combines static and dynamic prompts to balance information across modalities, ensuring robust reasoning even when key modalities are missing. The proposed SyP achieves significant performance improvements over existing approaches across three widely-used visual recognition datasets, demonstrating robustness under diverse missing rates and conditions. Extensive experiments and ablation studies validate its effectiveness in handling missing modalities, highlighting its superior adaptability and reliability.

Jian Zhang, Zhiyuan Wang, Zhangqi Wang et al.

Collaborative reasoning with multiple agents offers the potential for more robust and diverse problem-solving. However, existing approaches often suffer from homogeneous agent behaviors and lack of reflective and rethinking capabilities. We propose Multi-Agent Personality Shaping (MAPS), a novel framework that enhances reasoning through agent diversity and internal critique. Inspired by the Big Five personality theory, MAPS assigns distinct personality traits to individual agents, shaping their reasoning styles and promoting heterogeneous collaboration. To enable deeper and more adaptive reasoning, MAPS introduces a Critic agent that reflects on intermediate outputs, revisits flawed steps, and guides iterative refinement. This integration of personality-driven agent design and structured collaboration improves both reasoning depth and flexibility. Empirical evaluations across three benchmarks demonstrate the strong performance of MAPS, with further analysis confirming its generalizability across different large language models and validating the benefits of multi-agent collaboration.

Qika Lin, Zhen Peng, Kaize Shi et al.

Recent years have witnessed rapid advances in graph representation learning, with the continuous embedding approach emerging as the dominant paradigm. However, such methods encounter issues regarding parameter efficiency, interpretability, and robustness. Thus, Quantized Graph Representation (QGR) learning has recently gained increasing interest, which represents the graph structure with discrete codes instead of conventional continuous embeddings. Given its analogous representation form to natural language, QGR also possesses the capability to seamlessly integrate graph structures with large language models (LLMs). As this emerging paradigm is still in its infancy yet holds significant promise, we undertake this thorough survey to promote its rapid future prosperity. We first present the background of the general quantization methods and their merits. Moreover, we provide an in-depth demonstration of current QGR studies from the perspectives of quantized strategies, training objectives, distinctive designs, knowledge graph quantization, and applications. We further explore the strategies for code dependence learning and integration with LLMs. At last, we give discussions and conclude future directions, aiming to provide a comprehensive picture of QGR and inspire future research.

Yiming Xu, Jiarun Chen, Zhen Peng et al.

The natural combination of intricate topological structures and rich textual information in text-attributed graphs (TAGs) opens up a novel perspective for graph anomaly detection (GAD). However, existing GAD methods primarily focus on designing complex optimization objectives within the graph domain, overlooking the complementary value of the textual modality, whose features are often encoded by shallow embedding techniques, such as bag-of-words or skip-gram, so that semantic context related to anomalies may be missed. To unleash the enormous potential of textual modality, large language models (LLMs) have emerged as promising alternatives due to their strong semantic understanding and reasoning capabilities. Nevertheless, their application to TAG anomaly detection remains nascent, and they struggle to encode high-order structural information inherent in graphs due to input length constraints. For high-quality anomaly detection in TAGs, we propose CoLL, a novel framework that combines LLMs and graph neural networks (GNNs) to leverage their complementary strengths. CoLL employs multi-LLM collaboration for evidence-augmented generation to capture anomaly-relevant contexts while delivering human-readable rationales for detected anomalies. Moreover, CoLL integrates a GNN equipped with a gating mechanism to adaptively fuse textual features with evidence while preserving high-order topological information. Extensive experiments demonstrate the superiority of CoLL, achieving an average improvement of 13.37% in AP. This study opens a new avenue for incorporating LLMs in advancing GAD.

Qika Lin, Fangzhi Xu, Hao Lu et al.

Knowledge Graph (KG) reasoning has received significant attention in the fields of artificial intelligence and knowledge engineering, owing to its ability to autonomously deduce new knowledge and consequently enhance the availability and precision of downstream applications. However, current methods predominantly concentrate on a single form of neural or symbolic reasoning, failing to effectively integrate the inherent strengths of both approaches. Furthermore, the current prevalent methods primarily focus on addressing a single reasoning scenario, presenting limitations in meeting the diverse demands of real-world reasoning tasks. Unifying the neural and symbolic methods, as well as diverse reasoning scenarios in one model is challenging as there is a natural representation gap between symbolic rules and neural networks, and diverse scenarios exhibit distinct knowledge structures and specific reasoning objectives. To address these issues, we propose a unified neurosymbolic reasoning framework, namely Tunsr, for KG reasoning. Tunsr first introduces a consistent structure of reasoning graph that starts from the query entity and constantly expands subsequent nodes by iteratively searching posterior neighbors. Based on it, a forward logic message-passing mechanism is proposed to update both the propositional representations and attentions, as well as first-order logic (FOL) representations and attentions of each node. In this way, Tunsr conducts the transformation of merging multiple rules by merging possible relations at each step. Finally, the FARI algorithm is proposed to induce FOL rules by constantly performing attention calculations over the reasoning graph. Extensive experimental results on 19 datasets of four reasoning scenarios (transductive, inductive, interpolation, and extrapolation) demonstrate the effectiveness of Tunsr.

Fangzhi Xu, Qika Lin, Jun Liu et al.

Textbook Question Answering (TQA) is a complex multimodal task to infer answers given large context descriptions and abundant diagrams. Compared with Visual Question Answering (VQA), TQA contains a large number of uncommon terminologies and various diagram inputs. It brings new challenges to the representation capability of language model for domain-specific spans. And it also pushes the multimodal fusion to a more complex level. To tackle the above issues, we propose a novel model named MoCA, which incorporates multi-stage domain pretraining and multimodal cross attention for the TQA task. Firstly, we introduce a multi-stage domain pretraining module to conduct unsupervised post-pretraining with the span mask strategy and supervised pre-finetune. Especially for domain post-pretraining, we propose a heuristic generation algorithm to employ the terminology corpus. Secondly, to fully consider the rich inputs of context and diagrams, we propose cross-guided multimodal attention to update the features of text, question diagram and instructional diagram based on a progressive strategy. Further, a dual gating mechanism is adopted to improve the model ensemble. The experimental results show the superiority of our model, which outperforms the state-of-the-art methods by 2.21% and 2.43% for validation and test split respectively.

Yudai Pan, Jun Liu, Lingling Zhang et al.

Relation reasoning in knowledge graphs (KGs) aims at predicting missing relations in incomplete triples, whereas the dominant paradigm is learning the embeddings of relations and entities, which is limited to a transductive setting and has restriction on processing unseen entities in an inductive situation. Previous inductive methods are scalable and consume less resource. They utilize the structure of entities and triples in subgraphs to own inductive ability. However, in order to obtain better reasoning results, the model should acquire entity-independent relational semantics in latent rules and solve the deficient supervision caused by scarcity of rules in subgraphs. To address these issues, we propose a novel graph convolutional network (GCN)-based approach for interpretable inductive reasoning with relational path contrast, named RPC-IR. RPC-IR firstly extracts relational paths between two entities and learns representations of them, and then innovatively introduces a contrastive strategy by constructing positive and negative relational paths. A joint training strategy considering both supervised and contrastive information is also proposed. Comprehensive experiments on three inductive datasets show that RPC-IR achieves outstanding performance comparing with the latest inductive reasoning methods and could explicitly represent logical rules for interpretability.