arXiv subjects

Bowen Jin

Publications and source records attributed to Bowen Jin.

At least 55 records · Page 3Linked to original sources

arXiv2024

InstructG2I: Synthesizing Images from Multimodal Attributed Graphs

In this paper, we approach an overlooked yet critical task Graph2Image: generating images from multimodal attributed graphs (MMAGs). This task poses significant challenges due to the explosion in graph size, dependencies among graph entities, and the need for controllability in graph conditions. To address these challenges, we propose a graph context-conditioned diffusion model called InstructG2I. InstructG2I first exploits the graph structure and multimodal information to conduct informative neighbor sampling by combining personalized page rank and re-ranking based on vision-language features. Then, a Graph-QFormer encoder adaptively encodes the graph nodes into an auxiliary set of graph prompts to guide the denoising process of diffusion. Finally, we propose graph classifier-free guidance, enabling controllable generation by varying the strength of graph guidance and multiple connected edges to a node. Extensive experiments conducted on three datasets from different domains demonstrate the effectiveness and controllability of our approach. The code is available at https://github.com/PeterGriffinJin/InstructG2I.

cs.AI↗

arXiv2024

Long-Context LLMs Meet RAG: Overcoming Challenges for Long Inputs in RAG

Retrieval-augmented generation (RAG) empowers large language models (LLMs) to utilize external knowledge sources. The increasing capacity of LLMs to process longer input sequences opens up avenues for providing more retrieved information, to potentially enhance the quality of generated outputs. It is plausible to assume that a larger retrieval set would contain more relevant information (higher recall), that might result in improved performance. However, our empirical findings demonstrate that for many long-context LLMs, the quality of generated output initially improves first, but then subsequently declines as the number of retrieved passages increases. This paper investigates this phenomenon, identifying the detrimental impact of retrieved "hard negatives" as a key contributor. To mitigate this and enhance the robustness of long-context LLM-based RAG, we propose both training-free and training-based approaches. We first showcase the effectiveness of retrieval reordering as a simple yet powerful training-free optimization. Furthermore, we explore training-based methods, specifically RAG-specific implicit LLM fine-tuning and RAG-oriented fine-tuning with intermediate reasoning, demonstrating their capacity for substantial performance gains. Finally, we conduct a systematic analysis of design choices for these training-based methods, including data distribution, retriever selection, and training context length.

cs.CL↗

arXiv2024

Graph Chain-of-Thought: Augmenting Large Language Models by Reasoning on Graphs

Large language models (LLMs), while exhibiting exceptional performance, suffer from hallucinations, especially on knowledge-intensive tasks. Existing works propose to augment LLMs with individual text units retrieved from external knowledge corpora to alleviate the issue. However, in many domains, texts are interconnected (e.g., academic papers in a bibliographic graph are linked by citations and co-authorships) which form a (text-attributed) graph. The knowledge in such graphs is encoded not only in single texts/nodes but also in their associated connections. To facilitate the research of augmenting LLMs with graphs, we manually construct a Graph Reasoning Benchmark dataset called GRBench, containing 1,740 questions that can be answered with the knowledge from 10 domain graphs. Then, we propose a simple and effective framework called Graph Chain-of-thought (Graph-CoT) to augment LLMs with graphs by encouraging LLMs to reason on the graph iteratively. Each Graph-CoT iteration consists of three sub-steps: LLM reasoning, LLM-graph interaction, and graph execution. We conduct systematic experiments with three LLM backbones on GRBench, where Graph-CoT outperforms the baselines consistently. The code is available at https://github.com/PeterGriffinJin/Graph-CoT.

cs.CL↗

arXiv2024

A Comprehensive Survey of Scientific Large Language Models and Their Applications in Scientific Discovery

In many scientific fields, large language models (LLMs) have revolutionized the way text and other modalities of data (e.g., molecules and proteins) are handled, achieving superior performance in various applications and augmenting the scientific discovery process. Nevertheless, previous surveys on scientific LLMs often concentrate on one or two fields or a single modality. In this paper, we aim to provide a more holistic view of the research landscape by unveiling cross-field and cross-modal connections between scientific LLMs regarding their architectures and pre-training techniques. To this end, we comprehensively survey over 260 scientific LLMs, discuss their commonalities and differences, as well as summarize pre-training datasets and evaluation tasks for each field and modality. Moreover, we investigate how LLMs have been deployed to benefit scientific discovery. Resources related to this survey are available at https://github.com/yuzhimanhua/Awesome-Scientific-Language-Models.

cs.CL↗

arXiv2024

Investigating Instruction Tuning Large Language Models on Graphs

Inspired by the recent advancements of Large Language Models (LLMs) in NLP tasks, there's growing interest in applying LLMs to graph-related tasks. This study delves into the capabilities of instruction-following LLMs for engaging with real-world graphs, aiming to offer empirical insights into how LLMs can effectively interact with graphs and generalize across graph tasks. We begin by constructing a dataset designed for instruction tuning, which comprises a diverse collection of 79 graph-related tasks from academic and e-commerce domains, featuring 44,240 training instances and 18,960 test samples. Utilizing this benchmark, our initial investigation focuses on identifying the optimal graph representation that serves as a conduit for LLMs to understand complex graph structures. Our findings indicate that JSON format for graph representation consistently outperforms natural language and code formats across various LLMs and graph types. Furthermore, we examine the key factors that influence the generalization abilities of instruction-tuned LLMs by evaluating their performance on both in-domain and out-of-domain graph tasks.

cs.CL↗

arXiv2024

RAM-EHR: Retrieval Augmentation Meets Clinical Predictions on Electronic Health Records

We present RAM-EHR, a Retrieval AugMentation pipeline to improve clinical predictions on Electronic Health Records (EHRs). RAM-EHR first collects multiple knowledge sources, converts them into text format, and uses dense retrieval to obtain information related to medical concepts. This strategy addresses the difficulties associated with complex names for the concepts. RAM-EHR then augments the local EHR predictive model co-trained with consistency regularization to capture complementary information from patient visits and summarized knowledge. Experiments on two EHR datasets show the efficacy of RAM-EHR over previous knowledge-enhanced baselines (3.4% gain in AUROC and 7.2% gain in AUPR), emphasizing the effectiveness of the summarized knowledge from RAM-EHR for clinical prediction tasks. The code will be published at \url{https://github.com/ritaranx/RAM-EHR}.

cs.CL↗

arXiv2024

Learning Multiplex Representations on Text-Attributed Graphs with One Language Model Encoder

In real-world scenarios, texts in a graph are often linked by multiple semantic relations (e.g., papers in an academic graph are referenced by other publications, written by the same author, or published in the same venue), where text documents and their relations form a multiplex text-attributed graph. Mainstream text representation learning methods use pretrained language models (PLMs) to generate one embedding for each text unit, expecting that all types of relations between texts can be captured by these single-view embeddings. However, this presumption does not hold particularly in multiplex text-attributed graphs. Along another line of work, multiplex graph neural networks (GNNs) directly initialize node attributes as a feature vector for node representation learning, but they cannot fully capture the semantics of the nodes' associated texts. To bridge these gaps, we propose METAG, a new framework for learning Multiplex rEpresentations on Text-Attributed Graphs. In contrast to existing methods, METAG uses one text encoder to model the shared knowledge across relations and leverages a small number of parameters per relation to derive relation-specific representations. This allows the encoder to effectively capture the multiplex structures in the graph while also preserving parameter efficiency. We conduct experiments on nine downstream tasks in five graphs from both academic and e-commerce domains, where METAG outperforms baselines significantly and consistently. The code is available at https://github.com/PeterGriffinJin/METAG.

cs.CL↗

arXiv2024

Language Models As Semantic Indexers

Semantic identifier (ID) is an important concept in information retrieval that aims to preserve the semantics of objects such as documents and items inside their IDs. Previous studies typically adopt a two-stage pipeline to learn semantic IDs by first procuring embeddings using off-the-shelf text encoders and then deriving IDs based on the embeddings. However, each step introduces potential information loss, and there is usually an inherent mismatch between the distribution of embeddings within the latent space produced by text encoders and the anticipated distribution required for semantic indexing. It is non-trivial to design a method that can learn the document's semantic representations and its hierarchical structure simultaneously, given that semantic IDs are discrete and sequentially structured, and the semantic supervision is deficient. In this paper, we introduce LMIndexer, a self-supervised framework to learn semantic IDs with a generative language model. We tackle the challenge of sequential discrete ID by introducing a semantic indexer capable of generating neural sequential discrete representations with progressive training and contrastive learning. In response to the semantic supervision deficiency, we propose to train the model with a self-supervised document reconstruction objective. We show the high quality of the learned IDs and demonstrate their effectiveness on three tasks including recommendation, product search, and document retrieval on five datasets from various domains. Code is available at https://github.com/PeterGriffinJin/LMIndexer.

cs.IR↗

arXiv2024

Parameter-Efficient Tuning Large Language Models for Graph Representation Learning

Text-rich graphs, which exhibit rich textual information on nodes and edges, are prevalent across a wide range of real-world business applications. Large Language Models (LLMs) have demonstrated remarkable abilities in understanding text, which also introduced the potential for more expressive modeling in text-rich graphs. Despite these capabilities, efficiently applying LLMs to representation learning on graphs presents significant challenges. Recently, parameter-efficient fine-tuning methods for LLMs have enabled efficient new task generalization with minimal time and memory consumption. Inspired by this, we introduce Graph-aware Parameter-Efficient Fine-Tuning - GPEFT, a novel approach for efficient graph representation learning with LLMs on text-rich graphs. Specifically, we utilize a graph neural network (GNN) to encode structural information from neighboring nodes into a graph prompt. This prompt is then inserted at the beginning of the text sequence. To improve the quality of graph prompts, we pre-trained the GNN to assist the frozen LLM in predicting the next token in the node text. Compared with existing joint GNN and LMs, our method directly generate the node embeddings from large language models with an affordable fine-tuning cost. We validate our approach through comprehensive experiments conducted on 8 different text-rich graphs, observing an average improvement of 2% in hit@1 and Mean Reciprocal Rank (MRR) in link prediction evaluations. Our results demonstrate the efficacy and efficiency of our model, showing that it can be smoothly integrated with various large language models, including OPT, LLaMA and Falcon.

cs.CL↗

arXiv2024

Towards Unified Multi-Modal Personalization: Large Vision-Language Models for Generative Recommendation and Beyond

Developing a universal model that can effectively harness heterogeneous resources and respond to a wide range of personalized needs has been a longstanding community aspiration. Our daily choices, especially in domains like fashion and retail, are substantially shaped by multi-modal data, such as pictures and textual descriptions. These modalities not only offer intuitive guidance but also cater to personalized user preferences. However, the predominant personalization approaches mainly focus on the ID or text-based recommendation problem, failing to comprehend the information spanning various tasks or modalities. In this paper, our goal is to establish a Unified paradigm for Multi-modal Personalization systems (UniMP), which effectively leverages multi-modal data while eliminating the complexities associated with task- and modality-specific customization. We argue that the advancements in foundational generative modeling have provided the flexibility and effectiveness necessary to achieve the objective. In light of this, we develop a generic and extensible personalization generative framework, that can handle a wide range of personalized needs including item recommendation, product search, preference prediction, explanation generation, and further user-guided image generation. Our methodology enhances the capabilities of foundational language models for personalized tasks by seamlessly ingesting interleaved cross-modal user history information, ensuring a more precise and customized experience for users. To train and evaluate the proposed multi-modal personalized tasks, we also introduce a novel and comprehensive benchmark covering a variety of user requirements. Our experiments on the real-world benchmark showcase the model's potential, outperforming competitive methods specialized for each task.

cs.IR↗

arXiv2024

Improving Retrieval in Theme-specific Applications using a Corpus Topical Taxonomy

Document retrieval has greatly benefited from the advancements of large-scale pre-trained language models (PLMs). However, their effectiveness is often limited in theme-specific applications for specialized areas or industries, due to unique terminologies, incomplete contexts of user queries, and specialized search intents. To capture the theme-specific information and improve retrieval, we propose to use a corpus topical taxonomy, which outlines the latent topic structure of the corpus while reflecting user-interested aspects. We introduce ToTER (Topical Taxonomy Enhanced Retrieval) framework, which identifies the central topics of queries and documents with the guidance of the taxonomy, and exploits their topical relatedness to supplement missing contexts. As a plug-and-play framework, ToTER can be flexibly employed to enhance various PLM-based retrievers. Through extensive quantitative, ablative, and exploratory experiments on two real-world datasets, we ascertain the benefits of using topical taxonomy for retrieval in theme-specific applications and demonstrate the effectiveness of ToTER.

cs.IR↗

arXiv2023

Scalable and Effective Generative Information Retrieval

Recent research has shown that transformer networks can be used as differentiable search indexes by representing each document as a sequences of document ID tokens. These generative retrieval models cast the retrieval problem to a document ID generation problem for each given query. Despite their elegant design, existing generative retrieval models only perform well on artificially-constructed and small-scale collections. This has led to serious skepticism in the research community on their real-world impact. This paper represents an important milestone in generative retrieval research by showing, for the first time, that generative retrieval models can be trained to perform effectively on large-scale standard retrieval benchmarks. For doing so, we propose RIPOR- an optimization framework for generative retrieval that can be adopted by any encoder-decoder architecture. RIPOR is designed based on two often-overlooked fundamental design considerations in generative retrieval. First, given the sequential decoding nature of document ID generation, assigning accurate relevance scores to documents based on the whole document ID sequence is not sufficient. To address this issue, RIPOR introduces a novel prefix-oriented ranking optimization algorithm. Second, initial document IDs should be constructed based on relevance associations between queries and documents, instead of the syntactic and semantic information in the documents. RIPOR addresses this issue using a relevance-based document ID construction approach that quantizes relevance-based representations learned for documents. Evaluation on MSMARCO and TREC Deep Learning Track reveals that RIPOR surpasses state-of-the-art generative retrieval models by a large margin (e.g., 30.5% MRR improvements on MS MARCO Dev Set), and perform better on par with popular dense retrieval models.

cs.IR↗

arXiv2023

Weakly Supervised Multi-Label Classification of Full-Text Scientific Papers

Instead of relying on human-annotated training samples to build a classifier, weakly supervised scientific paper classification aims to classify papers only using category descriptions (e.g., category names, category-indicative keywords). Existing studies on weakly supervised paper classification are less concerned with two challenges: (1) Papers should be classified into not only coarse-grained research topics but also fine-grained themes, and potentially into multiple themes, given a large and fine-grained label space; and (2) full text should be utilized to complement the paper title and abstract for classification. Moreover, instead of viewing the entire paper as a long linear sequence, one should exploit the structural information such as citation links across papers and the hierarchy of sections and paragraphs in each paper. To tackle these challenges, in this study, we propose FUTEX, a framework that uses the cross-paper network structure and the in-paper hierarchy structure to classify full-text scientific papers under weak supervision. A network-aware contrastive fine-tuning module and a hierarchy-aware aggregation module are designed to leverage the two types of structural signals, respectively. Experiments on two benchmark datasets demonstrate that FUTEX significantly outperforms competitive baselines and is on par with fully supervised classifiers that use 1,000 to 60,000 ground-truth training samples.

cs.CL↗

arXiv2023

Heterformer: Transformer-based Deep Node Representation Learning on Heterogeneous Text-Rich Networks

Representation learning on networks aims to derive a meaningful vector representation for each node, thereby facilitating downstream tasks such as link prediction, node classification, and node clustering. In heterogeneous text-rich networks, this task is more challenging due to (1) presence or absence of text: Some nodes are associated with rich textual information, while others are not; (2) diversity of types: Nodes and edges of multiple types form a heterogeneous network structure. As pretrained language models (PLMs) have demonstrated their effectiveness in obtaining widely generalizable text representations, a substantial amount of effort has been made to incorporate PLMs into representation learning on text-rich networks. However, few of them can jointly consider heterogeneous structure (network) information as well as rich textual semantic information of each node effectively. In this paper, we propose Heterformer, a Heterogeneous Network-Empowered Transformer that performs contextualized text encoding and heterogeneous structure encoding in a unified model. Specifically, we inject heterogeneous structure information into each Transformer layer when encoding node texts. Meanwhile, Heterformer is capable of characterizing node/edge type heterogeneity and encoding nodes with or without texts. We conduct comprehensive experiments on three tasks (i.e., link prediction, node classification, and node clustering) on three large-scale datasets from different domains, where Heterformer outperforms competitive baselines significantly and consistently.

cs.CL↗

arXiv2023

Text-Augmented Open Knowledge Graph Completion via Pre-Trained Language Models

The mission of open knowledge graph (KG) completion is to draw new findings from known facts. Existing works that augment KG completion require either (1) factual triples to enlarge the graph reasoning space or (2) manually designed prompts to extract knowledge from a pre-trained language model (PLM), exhibiting limited performance and requiring expensive efforts from experts. To this end, we propose TAGREAL that automatically generates quality query prompts and retrieves support information from large text corpora to probe knowledge from PLM for KG completion. The results show that TAGREAL achieves state-of-the-art performance on two benchmark datasets. We find that TAGREAL has superb performance even with limited training data, outperforming existing embedding-based, graph-based, and PLM-based methods.

cs.CL↗

arXiv2023

Patton: Language Model Pretraining on Text-Rich Networks

A real-world text corpus sometimes comprises not only text documents but also semantic links between them (e.g., academic papers in a bibliographic network are linked by citations and co-authorships). Text documents and semantic connections form a text-rich network, which empowers a wide range of downstream tasks such as classification and retrieval. However, pretraining methods for such structures are still lacking, making it difficult to build one generic model that can be adapted to various tasks on text-rich networks. Current pretraining objectives, such as masked language modeling, purely model texts and do not take inter-document structure information into consideration. To this end, we propose our PretrAining on TexT-Rich NetwOrk framework Patton. Patton includes two pretraining strategies: network-contextualized masked language modeling and masked node prediction, to capture the inherent dependency between textual attributes and network structure. We conduct experiments on four downstream tasks in five datasets from both academic and e-commerce domains, where Patton outperforms baselines significantly and consistently.

cs.CL↗

arXiv2023

Edgeformers: Graph-Empowered Transformers for Representation Learning on Textual-Edge Networks

Edges in many real-world social/information networks are associated with rich text information (e.g., user-user communications or user-product reviews). However, mainstream network representation learning models focus on propagating and aggregating node attributes, lacking specific designs to utilize text semantics on edges. While there exist edge-aware graph neural networks, they directly initialize edge attributes as a feature vector, which cannot fully capture the contextualized text semantics of edges. In this paper, we propose Edgeformers, a framework built upon graph-enhanced Transformers, to perform edge and node representation learning by modeling texts on edges in a contextualized way. Specifically, in edge representation learning, we inject network information into each Transformer layer when encoding edge texts; in node representation learning, we aggregate edge representations through an attention mechanism within each node's ego-graph. On five public datasets from three different domains, Edgeformers consistently outperform state-of-the-art baselines in edge classification and link prediction, demonstrating the efficacy in learning edge and node representations, respectively.

cs.LG↗

arXiv2023

The Effect of Metadata on Scientific Literature Tagging: A Cross-Field Cross-Model Study

Due to the exponential growth of scientific publications on the Web, there is a pressing need to tag each paper with fine-grained topics so that researchers can track their interested fields of study rather than drowning in the whole literature. Scientific literature tagging is beyond a pure multi-label text classification task because papers on the Web are prevalently accompanied by metadata information such as venues, authors, and references, which may serve as additional signals to infer relevant tags. Although there have been studies making use of metadata in academic paper classification, their focus is often restricted to one or two scientific fields (e.g., computer science and biomedicine) and to one specific model. In this work, we systematically study the effect of metadata on scientific literature tagging across 19 fields. We select three representative multi-label classifiers (i.e., a bag-of-words model, a sequence-based model, and a pre-trained language model) and explore their performance change in scientific literature tagging when metadata are fed to the classifiers as additional features. We observe some ubiquitous patterns of metadata's effects across all fields (e.g., venues are consistently beneficial to paper tagging in almost all cases), as well as some unique patterns in fields other than computer science and biomedicine, which are not explored in previous studies.

cs.DL↗