Hanqing Zeng

Hanqing Zeng, Hanjia Lyu, Diyi Hu et al.

Realistic graphs contain both (1) rich self-features of nodes and (2) informative structures of neighborhoods, jointly handled by a Graph Neural Network (GNN) in the typical setup. We propose to decouple the two modalities by Mixture of weak and strong experts (Mowst), where the weak expert is a light-weight Multi-layer Perceptron (MLP), and the strong expert is an off-the-shelf GNN. To adapt the experts' collaboration to different target nodes, we propose a "confidence" mechanism based on the dispersion of the weak expert's prediction logits. The strong expert is conditionally activated in the low-confidence region when either the node's classification relies on neighborhood information, or the weak expert has low model quality. We reveal interesting training dynamics by analyzing the influence of the confidence function on loss: our training algorithm encourages the specialization of each expert by effectively generating soft splitting of the graph. In addition, our "confidence" design imposes a desirable bias toward the strong expert to benefit from GNN's better generalization capability. Mowst is easy to optimize and achieves strong expressive power, with a computation cost comparable to a single GNN. Empirically, Mowst on 4 backbone GNN architectures show significant accuracy improvement on 6 standard node classification benchmarks, including both homophilous and heterophilous graphs (https://github.com/facebookresearch/mowst-gnn).

Xiaotian Han, Hanqing Zeng, Yu Chen et al.

This paper investigates the relationship between graph convolution and Mixup techniques. Graph convolution in a graph neural network involves aggregating features from neighboring samples to learn representative features for a specific node or sample. On the other hand, Mixup is a data augmentation technique that generates new examples by averaging features and one-hot labels from multiple samples. One commonality between these techniques is their utilization of information from multiple samples to derive feature representation. This study aims to explore whether a connection exists between these two approaches. Our investigation reveals that, under two mild conditions, graph convolution can be viewed as a specialized form of Mixup that is applied during both the training and testing phases. The two conditions are: 1) \textit{Homophily Relabel} - assigning the target node's label to all its neighbors, and 2) \textit{Test-Time Mixup} - Mixup the feature during the test time. We establish this equivalence mathematically by demonstrating that graph convolution networks (GCN) and simplified graph convolution (SGC) can be expressed as a form of Mixup. We also empirically verify the equivalence by training an MLP using the two conditions to achieve comparable performance.

Ruizhong Qiu, Hanqing Zeng, Yinglong Xia et al.

Low-rank adapters (LoRAs) are a parameter-efficient finetuning technique that injects trainable low-rank matrices into pretrained models to adapt them to new tasks. Mixture-of-LoRAs models expand neural networks efficiently by routing each layer input to a small subset of specialized LoRAs of the layer. Existing Mixture-of-LoRAs routers assign a learned routing weight to each LoRA to enable end-to-end training of the router. Despite their empirical promise, we observe that the routing weights are typically extremely imbalanced across LoRAs in practice, where only one or two LoRAs often dominate the routing weights. This essentially limits the number of effective LoRAs and thus severely hinders the expressive power of existing Mixture-of-LoRAs models. In this work, we attribute this weakness to the nature of learnable routing weights and rethink the fundamental design of the router. To address this critical issue, we propose a new router designed that we call Reinforcement Routing for Mixture-of-LoRAs (ReMix). Our key idea is using non-learnable routing weights to ensure all active LoRAs to be equally effective, with no LoRA dominating the routing weights. However, our routers cannot be trained directly via gradient descent due to our non-learnable routing weights. Hence, we further propose an unbiased gradient estimator for the router by employing the reinforce leave-one-out (RLOO) technique, where we regard the supervision loss as the reward and the router as the policy in reinforcement learning. Our gradient estimator also enables to scale up training compute to boost the predictive performance of our ReMix. Extensive experiments demonstrate that our proposed ReMix significantly outperform state-of-the-art parameter-efficient finetuning methods under a comparable number of activated parameters.

Gangda Deng, Yuxin Yang, Ömer Faruk Akgül et al.

Graph Neural Networks (GNNs) have become essential tools for learning on relational data, yet the performance of a single GNN is often limited by the heterogeneity present in real-world graphs. Recent advances in Mixture-of-Experts (MoE) frameworks demonstrate that assembling multiple, explicitly diverse GNNs with distinct generalization patterns can significantly improve performance. In this work, we present the first systematic empirical study of expert-level diversification techniques for GNN ensembles. Evaluating 20 diversification strategies -- including random re-initialization, hyperparameter tuning, architectural variation, directionality modeling, and training data partitioning -- across 14 node classification benchmarks, we construct and analyze over 200 ensemble variants. Our comprehensive evaluation examines each technique in terms of expert diversity, complementarity, and ensemble performance. We also uncovers mechanistic insights into training maximally diverse experts. These findings provide actionable guidance for expert training and the design of effective MoE frameworks on graph data. Our code is available at https://github.com/Hydrapse/bench-gnn-diversification.

Hanqing Zeng, Hongkuan Zhou, Ajitesh Srivastava et al.

Graph Neural Networks (GNNs) are powerful deep learning models to generate node embeddings on graphs. When applying deep GNNs on large graphs, it is still challenging to perform training in an efficient and scalable way. We propose a novel parallel training framework. Through sampling small subgraphs as minibatches, we reduce training workload by orders of magnitude compared with state-of-the-art minibatch methods. We then parallelize the key computation steps on tightly-coupled shared memory systems. For graph sampling, we exploit parallelism within and across sampler instances, and propose an efficient data structure supporting concurrent accesses from samplers. The parallel sampler theoretically achieves near-linear speedup with respect to number of processing units. For feature propagation within subgraphs, we improve cache utilization and reduce DRAM traffic by data partitioning. Our partitioning is a 2-approximation strategy for minimizing the communication cost compared to the optimal. We further develop a runtime scheduler to reorder the training operations and adjust the minibatch subgraphs to improve parallel performance. Finally, we generalize the above parallelization strategies to support multiple types of GNN models and graph samplers. The proposed training outperforms the state-of-the-art in scalability, efficiency and accuracy simultaneously. On a 40-core Xeon platform, we achieve 60x speedup (with AVX) in the sampling step and 20x speedup in the feature propagation step, compared to the serial implementation. Our algorithm enables fast training of deeper GNNs, as demonstrated by orders of magnitude speedup compared to the Tensorflow implementation. We open-source our code at https://github.com/GraphSAINT/GraphSAINT.

Gangda Deng, Hongkuan Zhou, Hanqing Zeng et al.

Recently, Temporal Graph Neural Networks (TGNNs) have demonstrated state-of-the-art performance in various high-impact applications, including fraud detection and content recommendation. Despite the success of TGNNs, they are prone to the prevalent noise found in real-world dynamic graphs like time-deprecated links and skewed interaction distribution. The noise causes two critical issues that significantly compromise the accuracy of TGNNs: (1) models are supervised by inferior interactions, and (2) noisy input induces high variance in the aggregated messages. However, current TGNN denoising techniques do not consider the diverse and dynamic noise pattern of each node. In addition, they also suffer from the excessive mini-batch generation overheads caused by traversing more neighbors. We believe the remedy for fast and accurate TGNNs lies in temporal adaptive sampling. In this work, we propose TASER, the first adaptive sampling method for TGNNs optimized for accuracy, efficiency, and scalability. TASER adapts its mini-batch selection based on training dynamics and temporal neighbor selection based on the contextual, structural, and temporal properties of past interactions. To alleviate the bottleneck in mini-batch generation, TASER implements a pure GPU-based temporal neighbor finder and a dedicated GPU feature cache. We evaluate the performance of TASER using two state-of-the-art backbone TGNNs. On five popular datasets, TASER outperforms the corresponding baselines by an average of 2.3% in Mean Reciprocal Rank (MRR) while achieving an average of 5.1x speedup in training time.

Mufei Li, Dongqi Fu, Limei Wang et al. · gatech

Modern long-context large language models (LLMs) perform well on synthetic "needle-in-a-haystack" (NIAH) benchmarks, but such tests overlook how noisy contexts arise from biased retrieval and agentic workflows. We argue that haystack engineering is necessary to construct noisy long contexts that faithfully capture key real-world factors -- distraction from heterogeneous biased retrievers and cascading errors in agentic workflows -- to test models' long-context robustness. We instantiate it through HaystackCraft, a new NIAH benchmark built on the full English Wikipedia hyperlink network with multi-hop questions. HaystackCraft evaluates how heterogeneous retrieval strategies (e.g., sparse, dense, hybrid, and graph-based) affect distractor composition, haystack ordering, and downstream LLM performance. HaystackCraft further extends NIAH to dynamic, LLM-dependent settings that simulate agentic operations, where models refine queries, reflect on their past reasonings, and decide when to stop. Experiments with 15 long-context models show that (1) while stronger dense retrievers can introduce more challenging distractors, graph-based reranking simultaneously improves retrieval effectiveness and mitigates more harmful distractors; (2) in agentic tests, even advanced models like Gemini 2.5 Pro and GPT-5 suffer cascading failures from self-generated distractors or struggle to perform early stops. These results highlight persistent challenges in agentic long-context reasoning and establish HaystackCraft as a valuable testbed for future progress.

Hanqing Zeng, Muhan Zhang, Yinglong Xia et al.

State-of-the-art Graph Neural Networks (GNNs) have limited scalability with respect to the graph and model sizes. On large graphs, increasing the model depth often means exponential expansion of the scope (i.e., receptive field). Beyond just a few layers, two fundamental challenges emerge: 1. degraded expressivity due to oversmoothing, and 2. expensive computation due to neighborhood explosion. We propose a design principle to decouple the depth and scope of GNNs -- to generate representation of a target entity (i.e., a node or an edge), we first extract a localized subgraph as the bounded-size scope, and then apply a GNN of arbitrary depth on top of the subgraph. A properly extracted subgraph consists of a small number of critical neighbors, while excluding irrelevant ones. The GNN, no matter how deep it is, smooths the local neighborhood into informative representation rather than oversmoothing the global graph into "white noise". Theoretically, decoupling improves the GNN expressive power from the perspectives of graph signal processing (GCN), function approximation (GraphSAGE) and topological learning (GIN). Empirically, on seven graphs (with up to 110M nodes) and six backbone GNN architectures, our design achieves significant accuracy improvement with orders of magnitude reduction in computation and hardware cost.

Hongkuan Zhou, Ajitesh Srivastava, Hanqing Zeng et al.

Graph Neural Networks (GNNs) are proven to be powerful models to generate node embedding for downstream applications. However, due to the high computation complexity of GNN inference, it is hard to deploy GNNs for large-scale or real-time applications. In this paper, we propose to accelerate GNN inference by pruning the dimensions in each layer with negligible accuracy loss. Our pruning framework uses a novel LASSO regression formulation for GNNs to identify feature dimensions (channels) that have high influence on the output activation. We identify two inference scenarios and design pruning schemes based on their computation and memory usage for each. To further reduce the inference complexity, we effectively store and reuse hidden features of visited nodes, which significantly reduces the number of supporting nodes needed to compute the target embedding. We evaluate the proposed method with the node classification problem on five popular datasets and a real-time spam detection application. We demonstrate that the pruned GNN models greatly reduce computation and memory usage with little accuracy loss. For full inference, the proposed method achieves an average of 3.27x speedup with only 0.002 drop in F1-Micro on GPU. For batched inference, the proposed method achieves an average of 6.67x speedup with only 0.003 drop in F1-Micro on CPU. To the best of our knowledge, we are the first to accelerate large scale real-time GNN inference through channel pruning.

Hanqing Zeng, Muhan Zhang, Yinglong Xia et al.

While Graph Neural Networks (GNNs) are powerful models for learning representations on graphs, most state-of-the-art models do not have significant accuracy gain beyond two to three layers. Deep GNNs fundamentally need to address: 1). expressivity challenge due to oversmoothing, and 2). computation challenge due to neighborhood explosion. We propose a simple "deep GNN, shallow sampler" design principle to improve both the GNN accuracy and efficiency -- to generate representation of a target node, we use a deep GNN to pass messages only within a shallow, localized subgraph. A properly sampled subgraph may exclude irrelevant or even noisy nodes, and still preserve the critical neighbor features and graph structures. The deep GNN then smooths the informative local signals to enhance feature learning, rather than oversmoothing the global graph signals into just "white noise". We theoretically justify why the combination of deep GNNs with shallow samplers yields the best learning performance. We then propose various sampling algorithms and neural architecture extensions to achieve good empirical results. On the largest public graph dataset, ogbn-papers100M, we achieve state-of-the-art accuracy with an order of magnitude reduction in hardware cost.

Yue Niu, Hanqing Zeng, Ajitesh Srivastava et al.

To accelerate inference of Convolutional Neural Networks (CNNs), various techniques have been proposed to reduce computation redundancy. Converting convolutional layers into frequency domain significantly reduces the computation complexity of the sliding window operations in space domain. On the other hand, weight pruning techniques address the redundancy in model parameters by converting dense convolutional kernels into sparse ones. To obtain high-throughput FPGA implementation, we propose SPEC2 -- the first work to prune and accelerate spectral CNNs. First, we propose a systematic pruning algorithm based on Alternative Direction Method of Multipliers (ADMM). The offline pruning iteratively sets the majority of spectral weights to zero, without using any handcrafted heuristics. Then, we design an optimized pipeline architecture on FPGA that has efficient random access into the sparse kernels and exploits various dimensions of parallelism in convolutional layers. Overall, SPEC2 achieves high inference throughput with extremely low computation complexity and negligible accuracy degradation. We demonstrate SPEC2 by pruning and implementing LeNet and VGG16 on the Xilinx Virtex platform. After pruning 75% of the spectral weights, SPEC2 achieves 0% accuracy loss for LeNet, and <1% accuracy loss for VGG16. The resulting accelerators achieve up to 24x higher throughput, compared with the state-of-the-art FPGA implementations for VGG16.

Hanqing Zeng, Hongkuan Zhou, Ajitesh Srivastava et al.

Graph Convolutional Networks (GCNs) are powerful models for learning representations of attributed graphs. To scale GCNs to large graphs, state-of-the-art methods use various layer sampling techniques to alleviate the "neighbor explosion" problem during minibatch training. We propose GraphSAINT, a graph sampling based inductive learning method that improves training efficiency and accuracy in a fundamentally different way. By changing perspective, GraphSAINT constructs minibatches by sampling the training graph, rather than the nodes or edges across GCN layers. Each iteration, a complete GCN is built from the properly sampled subgraph. Thus, we ensure fixed number of well-connected nodes in all layers. We further propose normalization technique to eliminate bias, and sampling algorithms for variance reduction. Importantly, we can decouple the sampling from the forward and backward propagation, and extend GraphSAINT with many architecture variants (e.g., graph attention, jumping connection). GraphSAINT demonstrates superior performance in both accuracy and training time on five large graphs, and achieves new state-of-the-art F1 scores for PPI (0.995) and Reddit (0.970).

Hanqing Zeng, Hongkuan Zhou, Ajitesh Srivastava et al.

The Graph Convolutional Network (GCN) model and its variants are powerful graph embedding tools for facilitating classification and clustering on graphs. However, a major challenge is to reduce the complexity of layered GCNs and make them parallelizable and scalable on very large graphs -- state-of the art techniques are unable to achieve scalability without losing accuracy and efficiency. In this paper, we propose novel parallelization techniques for graph sampling-based GCNs that achieve superior scalable performance on very large graphs without compromising accuracy. Specifically, our GCN guarantees work-efficient training and produces order of magnitude savings in computation and communication. To scale GCN training on tightly-coupled shared memory systems, we develop parallelization strategies for the key steps in training: For the graph sampling step, we exploit parallelism within and across multiple sampling instances, and devise an efficient data structure for concurrent accesses that provides theoretical guarantee of near-linear speedup with number of processing units. For the feature propagation step within the sampled graph, we improve cache utilization and reduce DRAM communication by data partitioning. We prove that our partitioning strategy is a 2-approximation for minimizing the communication time compared to the optimal strategy. We demonstrate that our parallel graph embedding outperforms state-of-the-art methods in scalability (with respect to number of processors, graph size and GCN model size), efficiency and accuracy on several large datasets. On a 40-core Xeon platform, our parallel training achieves $64\times$ speedup (with AVX) in the sampling step and $25\times$ speedup in the feature propagation step, compared to the serial implementation, resulting in a net speedup of $21\times$.