Frontier large language models (LLMs) have demonstrated remarkable performance across various knowledge-intensive enterprise tasks. However, these models are primarily trained on unstructured, general knowledge, which limits their effectiveness in domain-specific applications-particularly when tasks involve structured data sources or sensitive enterprise information. We propose the first Structured Knowledge for Large Language Models Workshop - SKnow-LLM, which aims to bridge this gap by promoting research on innovative methodologies and practical applications in this area. Through keynote talks, panel discussions and paper presentations, the workshop will foster in-depth discussions on recent advances, identify existing challenges, and explore promising directions for integrating structured knowledge into LLMs.

Retrieval-Augmented Generation (RAG) grounds large language models in external evidence, yet it still falters when answers must be pieced together across semantically distant documents. We close this gap with the Hierarchical Lexical Graph (HLG), a three-tier index that (i) traces every atomic proposition to its source(ii) clusters propositions into latent topics, and (iii) links entities and relations to expose cross-document paths. On top of HLG we build two complementary, plug-and-play retrievers: StatementGraphRAG, which performs fine-grained entity-aware beam search over propositions for high-precision factoid questions, and TopicGraphRAG, which selects coarse topics before expanding along entity links to supply broad yet relevant context for exploratory queries. Additionally, existing benchmarks lack the complexity required to rigorously evaluate multi-hop summarization systems, often focusing on single-document queries or limited datasets. To address this, we introduce a synthetic dataset generation pipeline that curates realistic, multi-document question-answer pairs, enabling robust evaluation of multi-hop retrieval systems. Extensive experiments across five datasets demonstrate that our methods outperform naive chunk-based RAG, achieving an average relative improvement of 23.1% in retrieval recall and correctness. Open-source Python library is available at https://github.com/awslabs/graphrag-toolkit.

We propose OmniMatch , a novel joinability discovery technique, specifically tailored for the needs of data products : cohesive curated collections of tabular datasets. OmniMatch combines multiple column-pair similarity measures leveraging self-supervised Graph Neural Networks (GNNs). OmniMatch 's GNN captures column relatedness by leveraging graph neighborhood information, significantly improving the recall of joinability discovery tasks. At the same time, OmniMatch increases its precision by augmenting its training data with negative column join examples through an automated negative example generation process. Compared to the state-of-the-art, OmniMatch exhibits up to 14% higher effectiveness in F1 score and AUC without relying on individual, user-provided thresholds for each similarity metric.

This paper introduces OrthoReg, a simple yet effective Graph-regularized MLP model for semi-supervised node representation learning. We first demonstrate, through empirical observations and theoretical analysis, that node embeddings learned from conventional GR-MLPs suffer from the over-correlation issue. This issue arises when a few dominant singular values overwhelm the embedding space, leading to the limited expressive power of the learned node representations. To mitigate this problem, we propose a novel GR-MLP model called OrthoReg. By incorporating a soft regularization loss on the correlation matrix of node embeddings, OrthoReg explicitly encourages orthogonal node representations, effectively avoiding over-correlated representations. Compared to the currently popular GNN models, our OrthoReg possesses two distinct advantages: 1) Much faster inference speed, particularly for large-scale graphs. 2) Significantly superior performance in inductive cold-start settings. Experiments on semi-supervised node classification tasks, together with the extensive ablation studies, have demonstrated the effectiveness of the proposed designs.

How can we enhance the node features acquired from Pretrained Models (PMs) to better suit downstream graph learning tasks? Graph Neural Networks (GNNs) have become the state-of-the-art approach for many high-impact, real-world graph applications. For feature-rich graphs, a prevalent practice involves directly utilizing a PM to generate features. Nevertheless, this practice is suboptimal as the node features extracted from PMs are graph-agnostic and prevent GNNs from fully utilizing the potential correlations between the graph structure and node features, leading to a decline in GNN performance. In this work, we seek to improve the node features obtained from a PM for graph tasks and introduce TouchUp-G, a "Detect & Correct" approach for refining node features extracted from PMs. TouchUp-G detects the alignment using a novel feature homophily metric and corrects the misalignment through a simple touchup on the PM. It is (a) General: applicable to any downstream graph task; (b) Multi-modal: able to improve raw features of any modality; (c) Principled: it is closely related to a novel metric, feature homophily, which we propose to quantify the alignment between the graph structure and node features; (d) Effective: achieving state-of-the-art results on four real-world datasets spanning different tasks and modalities.

While Graph Neural Networks (GNNs) are remarkably successful in a variety of high-impact applications, we demonstrate that, in link prediction, the common practices of including the edges being predicted in the graph at training and/or test have outsized impact on the performance of low-degree nodes. We theoretically and empirically investigate how these practices impact node-level performance across different degrees. Specifically, we explore three issues that arise: (I1) overfitting; (I2) distribution shift; and (I3) implicit test leakage. The former two issues lead to poor generalizability to the test data, while the latter leads to overestimation of the model's performance and directly impacts the deployment of GNNs. To address these issues in a systematic way, we introduce an effective and efficient GNN training framework, SpotTarget, which leverages our insight on low-degree nodes: (1) at training time, it excludes a (training) edge to be predicted if it is incident to at least one low-degree node; and (2) at test time, it excludes all test edges to be predicted (thus, mimicking real scenarios of using GNNs, where the test data is not included in the graph). SpotTarget helps researchers and practitioners adhere to best practices for learning from graph data, which are frequently overlooked even by the most widely-used frameworks. Our experiments on various real-world datasets show that SpotTarget makes GNNs up to 15× more accurate in sparse graphs, and significantly improves their performance for low-degree nodes in dense graphs.

Model pre-training on large text corpora has been demonstrated effective for various downstream applications in the NLP domain. In the graph mining domain, a similar analogy can be drawn for pre-training graph models on large graphs in the hope of benefiting downstream graph applications, which has also been explored by several recent studies. However, no existing study has ever investigated the pre-training of text plus graph models on large heterogeneous graphs with abundant textual information (a.k.a. large graph corpora) and then fine-tuning the model on different related downstream applications with different graph schemas. To address this problem, we propose a framework of graph-aware language model pre-training (GaLM) on a large graph corpus, which incorporates large language models and graph neural networks, and a variety of fine-tuning methods on downstream applications. We conduct extensive experiments on Amazon's real internal datasets and large public datasets. Comprehensive empirical results and in-depth analysis demonstrate the effectiveness of our proposed methods along with lessons learned.

Graphs (or networks) are ubiquitous representation in life sciences and medicine, from molecular interactions maps, signaling transduction pathways, to graphs of scientific knowledge and patient- disease-intervention relationships derived from population studies and/or real-world data, such as electronic health records and insurance claims. Recent advance in graph machine learning (ML) approaches such as graph neural networks (GNNs) has transformed a diverse set of problems relying on biomedical networks that traditionally depend on descriptive topological data analyses. Small- and macro- molecules that were not modeled as graphs also saw a bloom in GNN-based algorithms improving the state-of-the-art performance for learning their properties. Comparing to graph ML applications from other domains, life sciences offer many unique problems and nuances ranging from graph construction to graph- level, and bi-graph-level supervision tasks.

Many real world graphs contain time domain information. Temporal Graph Neural Networks capture temporal information as well as structural and contextual information in the generated dynamic node embeddings. Researchers have shown that these embeddings achieve state-of-the-art performance in many different tasks. In this work, we propose TGL, a unified framework for large-scale offline Temporal Graph Neural Network training where users can compose various Temporal Graph Neural Networks with simple configuration files. TGL comprises five main components, a temporal sampler, a mailbox, a node memory module, a memory updater, and a message passing engine. We design a Temporal-CSR data structure and a parallel sampler to efficiently sample temporal neighbors to form training mini-batches. We propose a novel random chunk scheduling technique that mitigates the problem of obsolete node memory when training with a large batch size. To address the limitations of current TGNNs only being evaluated on small-scale datasets, we introduce two large-scale real-world datasets with 0.2 and 1.3 billion temporal edges. We evaluate the performance of TGL on four small-scale datasets with a single GPU and the two large datasets with multiple GPUs for both link prediction and node classification tasks. We compare TGL with the open-sourced code of five methods and show that TGL achieves similar or better accuracy with an average of 13X speedup. Our temporal parallel sampler achieves an average of 173X speedup on a multi-core CPU compared with the baselines. On a 4-GPU machine, TGL can train one epoch of more than one billion temporal edges within 1-10 hours. To the best of our knowledge, this is the first work that proposes a general framework for large-scale Temporal Graph Neural Networks training on multiple GPUs.

Joint analysis of data from multiple information repositories facilitates uncovering the underlying structure in heterogeneous datasets. Single and coupled matrix-tensor factorization (CMTF) has been widely used in this context for imputation-based recommendation from ratings, social network, and other user-item data. When this side information is in the form of item-item correlation matrices or graphs, existing CMTF algorithms may fall short. Alleviating current limitations, we introduce a novel model coined coupled graph-tensor factorization (CGTF) that judiciously accounts for graph-related side information. The CGTF model has the potential to overcome practical challenges, such as missing slabs from the tensor and/or missing rows/columns from the correlation matrices. A novel alternating direction method of multipliers (ADMM) is also developed that recovers the nonnegative factors of CGTF. Our algorithm enjoys closed-form updates that result in reduced computational complexity and allow for convergence claims. A novel direction is further explored by employing the interpretable factors to detect graph communities having the tensor as side information. The resulting community detection approach is successful even when some links in the graphs are missing. Results with real data sets corroborate the merits of the proposed methods relative to state-of-the-art competing factorization techniques in providing recommendations and detecting communities.