Papers for

graph data engineers

Papers whose findings have a practical use for this group, as judged from the abstract. Open a paper to read what it means in practice.

Homophily gated prediction improves node classification reliability without training

Valid for Free: Homophily-Gated Conformal Prediction for Training-Free Node Classification with Tabular Foundation Models

Abstract: Tabular foundation models (TFMs) can classify the nodes of a graph without training on it, by reading node and neighborhood features as table rows next to labeled context rows. Work in this line reports predictive performance, not conformal coverage or prediction-set size. To our knowledge, we give the first reliability study of the setting, with TabICL as the TFM and half of each graph as labeled context. As for any predictor fixed before calibration, a frozen in-context predictor makes split conformal prediction exactly valid in finite samples, with no training, validation fold, or tuning on the target graph. An audit across ten graphs then shows that the training-free TabICL posterior has lower expected calibration error (ECE) than GCN with temperature scaling (GCN+TS) on nine of them. Its mean ECE over the ten graphs is 0.019, about 35 percent below the 0.029 of GCN+TS. We also introduce HG-DAPS, a training-free diffusion score whose homophily gate reads only the in-context labels, so the guarantee still holds. Relative to adaptive prediction sets (APS), it reduces mean set size by 5.8 to 17.1 percent on six homophilous graphs and changes it by under 1 percent on four heterophilous ones. On two binary, class-imbalanced graphs, a pre-registered trap case shows that gating on raw rather than adjusted homophily lowers coverage among low-homophily nodes by 0.27 and 0.12. Marginal coverage stays at the nominal 0.90 and masks this drop.

Tue 6 OctMachine Learning
The gist
Predicting categories for nodes in a network usually needs lots of training data and time. The authors study how to make prediction sets that are reliable and accurate without training, by using tabular foundation models that read node information and known examples in context. They show this method gives better calibrated confidence in predictions compared to some existing models, saving effort and improving trust. They also propose a new way to adjust predictions based on how similar connected nodes are, which makes prediction sets smaller for certain graphs without losing reliability.
Open → 2610.08564v1

Constant curvature sliced gromov-wasserstein aligns diverse curved spaces

Constant-Curvature Sliced Gromov-Wasserstein for Heterogeneous Cross-Curvature Alignment

Abstract: Recent advances in representation learning have highlighted the utility of constant-curvature models, such as hyperbolic and spherical spaces, for modeling complex data. Mixed-curvature models further enhance this by integrating multiple constant-curvature components. However, these models typically learn each component space independently because spaces with different curvatures are inherently heterogeneous and lack a unified metric. Consequently, they lack explicit mechanisms to enforce geometric consistency across various spaces. Moreover, the problem of comparing probability distributions across mixed-curvature spaces remains unexplored. To compare distributions on heterogeneous spaces, Gromov-Wasserstein (GW) distances provide a principled framework by aligning their intra-space geometries. Building on this, we propose constant-curvature sliced Gromov-Wasserstein (CCSGW), a novel divergence for aligning distributions supported on heterogeneous constant-curvature spaces. We first introduce the missing geodesic-based one-dimensional projections for spherical spaces, and then extend sliced GW to constant-curvature spaces, enabling efficient and principled comparison across manifolds with different curvatures. This formulation preserves intrinsic geometric relationships while avoiding the high computational cost. We provide theoretical analysis showing that CCSGW controls intrinsic geometric discrepancy across heterogeneous spaces, promoting distribution-level geometric consistency. By integrating CCSGW into existing mixed-curvature learning tasks, including graph anomaly detection, graph node classification, and multimodal learning, we observe consistent performance gains across diverse settings.

Mon 5 OctMachine Learning
The gist
Comparing and aligning data that live in different curved spaces, like spheres and hyperbolic spaces, is difficult because these spaces have different geometric properties. The authors developed a new way to measure differences between data distributions across these varied curved spaces efficiently, preserving their intrinsic geometry. They introduced novel mathematical projections for spheres and extended an existing method to handle multiple types of curved spaces together. Their approach helps maintain geometric consistency and improves performance in tasks like detecting anomalies in graphs and classifying graph nodes.
Open → 2610.07218v1

Multi-agent systems improve graph learning accuracy and efficiency

GraphMAS: A Systematic Benchmark of Multi-Agent Coordination for Graph Learning

Abstract: LLM-based multi-agent systems coordinate specialized reasoning through aggregation, interaction, and adaptive control, yet their potential for graph learning remains unexplored. Graph learning is a natural setting for such systems because useful evidence may arise from heterogeneous local, long-range, global structural, and semantic perspectives whose relevance varies across instances. Existing LLM-based graph learning approaches primarily rely on single-agent reasoning, while multi-agent coordination has been studied mainly in general reasoning settings. Consequently, it remains unclear whether multiple specialized agents can improve graph learning and how coordination strategies should be designed and evaluated. To address this gap, we introduce GraphMAS, a systematic benchmark of multi-agent coordination for graph learning. GraphMAS builds a shared pool of graph reasoning specialists and organizes coordination along two dimensions, inter-agent interaction and runtime adaptivity, yielding four paradigms and seven representative coordination methods. Under a unified protocol, we evaluate these methods across seven text-attributed graphs, three domains, and two graph learning tasks. We find that heterogeneous graph perspectives are complementary, and that coordinating specialists improves over individual specialists and single-agent graph reasoning, with gains from decomposing reasoning across specialists rather than from broader evidence access alone. However, richer inter-agent interaction does not reliably help, whereas instance-adaptive specialist selection yields the strongest accuracy-efficiency trade-off. We further show that coordination can be learned over a fixed specialist pool and transfers to held-out graphs. GraphMAS therefore provides a controlled evaluation framework and empirical principles for understanding when and how multi-agent coordination benefits graph learning.

Wed 30 SeptMachine Learning
The gist
Graph learning tries to understand and make predictions based on complex networks of connected information. This paper looks at how using teams of specialized AI agents working together can improve graph learning, compared to just one agent doing all the thinking alone. The authors created a benchmark called GraphMAS to compare different ways these agents can share and coordinate their reasoning. They found that breaking tasks into specialist agents generally helps, especially when the system picks which agents to use for each case. However, more complex communication between agents is not always better. Their results help explain when teamwork benefits graph learning and provide tools to test future methods.
Open → 2609.39777v1

Graph message passing delivers fast accurate learning without retraining

Message Passing Does More with Less for In-Context Learning on Graphs

Abstract: Achieving strong performance with graph neural networks (GNNs) typically requires training and hyperparameter tuning for each dataset, incurring repeated costs and effort. Graph in-context learning (ICL) avoids this by using a single pretrained model to predict unknown node labels directly from labeled context nodes. Existing approaches, however, rely on dense attention across nodes, making inference increasingly expensive as graphs grow. In this work, we present Ephris, a new graph in-context learner built on sparse message passing, scaling linearly with the number of node-feature entries and graph edges. Ephris is pretrained entirely on synthetic graphs generated from structural causal models with diverse graph structures and relational dynamics, exposing the model to varied dependencies among topology, features, and labels. We evaluate Ephris on 51 node-classification datasets against 15 extensively tuned GNNs and existing graph ICL methods under both high- and low-label train/validation/test splits. Across both settings, Ephris ranks first on all four aggregate measures: Elo, improvability, average rank, and accuracy. Its inference cost remains comparable to training a single GNN once, while being over 10 times faster than previous graph ICL models. Together, these results advance the performance-runtime Pareto frontier, demonstrating that strong graph ICL does not require dense attention. Code and model weights are available at https://github.com/nums-ai/ephris.

Tue 29 SeptMachine LearningSocial and Information Networks
The gist
Getting graph neural networks (GNNs) to work well normally needs training and tuning for each new graph, which takes lots of time. The authors introduce Ephris, a way to use a single pretrained model that learns from some known nodes to predict others without retraining. Ephris uses a faster method called sparse message passing, making it much quicker especially on large graphs. Tests show Ephris is better and faster than existing graph learning methods on many datasets.
Open → 2609.37057v1