Graphs play an important role in representing complex relationships in various domains like social networks, knowledge graphs, and molecular discovery. With the advent of deep learning, Graph Neural Networks (GNNs) have emerged as a cornerstone in Graph Machine Learning (Graph ML), facilitating the representation and processing of graphs. Recently, LLMs have demonstrated unprecedented capabilities in language tasks and are widely adopted in a variety of applications, such as computer vision and recommender systems. This remarkable success has also attracted interest in applying LLMs to the graph domain. Increasing efforts have been made to explore the potential of LLMs in advancing Graph ML’s generalization, transferability, and few-shot learning ability. Meanwhile, graphs, especially knowledge graphs, are rich in reliable factual knowledge, which can be utilized to enhance the reasoning capabilities of LLMs and potentially alleviate their limitations, such as hallucinations and the lack of explainability. Given the rapid progress of this research direction, a systematic review summarizing the latest advancements for Graph ML in the era of LLMs is necessary to provide an in-depth understanding to researchers and practitioners. Therefore, in this survey, we first review the recent developments in Graph ML. We then explore how LLMs can be utilized to enhance the quality of graph features, alleviate the reliance on labeled data, and address challenges such as graph Heterophily and Out-of-Distribution (OOD) generalization. Afterward, we delve into how graphs can enhance LLMs, highlighting their abilities to enhance LLM pre-training and inference. Furthermore, we investigate various applications and discuss the potential future directions in this promising field.

Fair graph learning plays a pivotal role in numerous practical applications. Recently, many fair graph learning methods have been proposed; however, their evaluation often relies on poorly constructed semi-synthetic datasets or substandard real-world datasets. In such cases, even a basic Multilayer Perceptron (MLP) can outperform Graph Neural Networks (GNNs) in both utility and fairness. In this work, we illustrate that many datasets fail to provide meaningful information in the edges, which may challenge the necessity of using graph structures in these problems. To address these issues, we develop and introduce a collection of synthetic, semi-synthetic, and real-world datasets that fulfill a broad spectrum of requirements. These datasets are thoughtfully designed to include relevant graph structures and bias information crucial for the fair evaluation of models. The proposed synthetic and semi-synthetic datasets offer the flexibility to create data with controllable bias parameters, thereby enabling the generation of desired datasets with user-defined bias values with ease. Moreover, we conduct systematic evaluations of these proposed datasets and establish a unified evaluation approach for fair graph learning models. Our extensive experimental results with fair graph learning methods across our datasets demonstrate their effectiveness in benchmarking the performance of these methods. Our datasets and the code for reproducing our experiments are available at https://github.com/XweiQ/Benchmark-GraphFairness.

Link prediction is a common task on graph-structured data that has seen applications in a variety of domains. Classically, hand-crafted heuristics were used for this task. Heuristic measures are chosen such that they correlate well with the underlying factors related to link formation. In recent years, a new class of methods has emerged that combines the advantages of message-passing neural networks (MPNN) and heuristics methods. These methods perform predictions by using the output of an MPNN in conjunction with a "pairwise encoding" that captures the relationship between nodes in the candidate link. They have been shown to achieve strong performance on numerous datasets. However, current pairwise encodings often contain a strong inductive bias, using the same underlying factors to classify all links. This limits the ability of existing methods to learn how to properly classify a variety of different links that may form from different factors. To address this limitation, we propose a new method, LPFormer, which attempts to adaptively learn the pairwise encodings for each link. LPFormer models the link factors via an attention module that learns the pairwise encoding that exists between nodes by modeling multiple factors integral to link prediction. Extensive experiments demonstrate that LPFormer can achieve SOTA performance on numerous datasets while maintaining efficiency. The code is available at The code is available at https://github.com/HarryShomer/LPFormer.

Graph Neural Networks (GNNs) have achieved great success on a variety of tasks with graph-structural data, among which node classification is an essential one. Unsupervised Graph Domain Adaptation (UGDA) shows its practical value of reducing the labeling cost for node classification. It leverages knowledge from a labeled graph (i.e., source domain) to tackle the same task on another unlabeled graph (i.e., target domain). Most existing UGDA methods heavily rely on the labeled graph in the source domain. They utilize labels from the source domain as the supervision signal and are jointly trained on both the source graph and the target graph. However, in some real-world scenarios, the source graph is inaccessible because of privacy issues. Therefore, we propose a novel scenario named Source Free Unsupervised Graph Domain Adaptation (SFUGDA). In this scenario, the only information we can leverage from the source domain is the well-trained source model, without any exposure to the source graph and its labels. As a result, existing UGDA methods are not feasible anymore. To address the non-trivial adaptation challenges in this practical scenario, we propose a model-agnostic algorithm called SOGA for domain adaptation to fully exploit the discriminative ability of the source model while preserving the consistency of structural proximity on the target graph. We prove the effectiveness of the proposed algorithm both theoretically and empirically. The experimental results on four cross-domain tasks show consistent improvements in the Macro-F1 score and Macro-AUC.

The page presentation biases in the information retrieval system, especially on the click behavior, is a well-known challenge that hinders improving ranking models' performance with implicit user feedback. Unbiased Learning to Rank~(ULTR) algorithms are then proposed to learn an unbiased ranking model with biased click data. However, most existing algorithms are specifically designed to mitigate position-related bias, e.g., trust bias, without considering biases induced by other features in search result page presentation(SERP), e.g. attractive bias induced by the multimedia. Unfortunately, those biases widely exist in industrial systems and may lead to an unsatisfactory search experience. Therefore, we introduce a new problem, i.e., whole-page Unbiased Learning to Rank(WP-ULTR), aiming to handle biases induced by whole-page SERP features simultaneously. It presents tremendous challenges: (1) a suitable user behavior model (user behavior hypothesis) can be hard to find; and (2) complex biases cannot be handled by existing algorithms. To address the above challenges, we propose a Bias Agnostic whole-page unbiased Learning to rank algorithm, named BAL, to automatically find the user behavior model with causal discovery and mitigate the biases induced by multiple SERP features with no specific design. Experimental results on a real-world dataset verify the effectiveness of the BAL.

Initialization plays a critical role in the training of deep neural networks (DNN). Existing initialization strategies mainly focus on stabilizing the training process to mitigate gradient vanish/explosion problems. However, these initialization methods are lacking in consideration about how to enhance generalization ability. The Information Bottleneck (IB) theory is a well-known understanding framework to provide an explanation about the generalization of DNN. Guided by the insights provided by IB theory, we design two criteria for better initializing DNN. And we further design a neuron campaign initialization algorithm to efficiently select a good initialization for a neural network on a given dataset. The experiments on MNIST dataset show that our method can lead to a better generalization performance with faster convergence.