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Sep 24

On the Connection Between MPNN and Graph Transformer

Graph Transformer (GT) recently has emerged as a new paradigm of graph learning algorithms, outperforming the previously popular Message Passing Neural Network (MPNN) on multiple benchmarks. Previous work (Kim et al., 2022) shows that with proper position embedding, GT can approximate MPNN arbitrarily well, implying that GT is at least as powerful as MPNN. In this paper, we study the inverse connection and show that MPNN with virtual node (VN), a commonly used heuristic with little theoretical understanding, is powerful enough to arbitrarily approximate the self-attention layer of GT. In particular, we first show that if we consider one type of linear transformer, the so-called Performer/Linear Transformer (Choromanski et al., 2020; Katharopoulos et al., 2020), then MPNN + VN with only O(1) depth and O(1) width can approximate a self-attention layer in Performer/Linear Transformer. Next, via a connection between MPNN + VN and DeepSets, we prove the MPNN + VN with O(n^d) width and O(1) depth can approximate the self-attention layer arbitrarily well, where d is the input feature dimension. Lastly, under some assumptions, we provide an explicit construction of MPNN + VN with O(1) width and O(n) depth approximating the self-attention layer in GT arbitrarily well. On the empirical side, we demonstrate that 1) MPNN + VN is a surprisingly strong baseline, outperforming GT on the recently proposed Long Range Graph Benchmark (LRGB) dataset, 2) our MPNN + VN improves over early implementation on a wide range of OGB datasets and 3) MPNN + VN outperforms Linear Transformer and MPNN on the climate modeling task.

  • 4 authors
·
Jan 27, 2023

Can Large Language Models Analyze Graphs like Professionals? A Benchmark, Datasets and Models

The need to analyze graphs is ubiquitous across various fields, from social networks to biological research and recommendation systems. Therefore, enabling the ability of large language models (LLMs) to process graphs is an important step toward more advanced general intelligence. However, current LLM benchmarks on graph analysis require models to directly reason over the prompts describing graph topology, and are thus limited to small graphs with only a few dozens of nodes. In contrast, human experts typically write programs based on popular libraries for task solving, and can thus handle graphs with different scales. To this end, a question naturally arises: can LLMs analyze graphs like professionals? In this paper, we introduce ProGraph, a manually crafted benchmark containing 3 categories of graph tasks. The benchmark expects solutions based on programming instead of directly reasoning over raw inputs. Our findings reveal that the performance of current LLMs is unsatisfactory, with the best model achieving only 36% accuracy. To bridge this gap, we propose LLM4Graph datasets, which include crawled documents and auto-generated codes based on 6 widely used graph libraries. By augmenting closed-source LLMs with document retrieval and fine-tuning open-source ones on the codes, we show 11-32% absolute improvements in their accuracies. Our results underscore that the capabilities of LLMs in handling structured data are still under-explored, and show the effectiveness of LLM4Graph in enhancing LLMs' proficiency of graph analysis. The benchmark, datasets and enhanced open-source models are available at https://github.com/BUPT-GAMMA/ProGraph.

  • 12 authors
·
Sep 29, 2024

OGB-LSC: A Large-Scale Challenge for Machine Learning on Graphs

Enabling effective and efficient machine learning (ML) over large-scale graph data (e.g., graphs with billions of edges) can have a great impact on both industrial and scientific applications. However, existing efforts to advance large-scale graph ML have been largely limited by the lack of a suitable public benchmark. Here we present OGB Large-Scale Challenge (OGB-LSC), a collection of three real-world datasets for facilitating the advancements in large-scale graph ML. The OGB-LSC datasets are orders of magnitude larger than existing ones, covering three core graph learning tasks -- link prediction, graph regression, and node classification. Furthermore, we provide dedicated baseline experiments, scaling up expressive graph ML models to the massive datasets. We show that expressive models significantly outperform simple scalable baselines, indicating an opportunity for dedicated efforts to further improve graph ML at scale. Moreover, OGB-LSC datasets were deployed at ACM KDD Cup 2021 and attracted more than 500 team registrations globally, during which significant performance improvements were made by a variety of innovative techniques. We summarize the common techniques used by the winning solutions and highlight the current best practices in large-scale graph ML. Finally, we describe how we have updated the datasets after the KDD Cup to further facilitate research advances. The OGB-LSC datasets, baseline code, and all the information about the KDD Cup are available at https://ogb.stanford.edu/docs/lsc/ .

  • 6 authors
·
Mar 17, 2021

LongProc: Benchmarking Long-Context Language Models on Long Procedural Generation

Existing benchmarks for evaluating long-context language models (LCLMs) primarily focus on long-context recall, requiring models to produce short responses based on a few critical snippets while processing thousands of irrelevant tokens. We introduce LongProc (Long Procedural Generation), a new benchmark that requires both the integration of highly dispersed information and long-form generation. LongProc consists of six diverse procedural generation tasks, such as extracting structured information from HTML pages into a TSV format and executing complex search procedures to create travel plans. These tasks challenge LCLMs by testing their ability to follow detailed procedural instructions, synthesize and reason over dispersed information, and generate structured, long-form outputs (up to 8K tokens). Furthermore, as these tasks adhere to deterministic procedures and yield structured outputs, they enable reliable rule-based evaluation. We evaluate 17 LCLMs on LongProc across three difficulty levels, with maximum numbers of output tokens set at 500, 2K, and 8K. Notably, while all tested models claim a context window size above 32K tokens, open-weight models typically falter on 2K-token tasks, and closed-source models like GPT-4o show significant degradation on 8K-token tasks. Further analysis reveals that LCLMs struggle to maintain long-range coherence in long-form generations. These findings highlight critical limitations in current LCLMs and suggest substantial room for improvement. Data and code available at: https://princeton-pli.github.io/LongProc

  • 8 authors
·
Jan 9, 2025

RDB2G-Bench: A Comprehensive Benchmark for Automatic Graph Modeling of Relational Databases

Relational databases (RDBs) are composed of interconnected tables, where relationships between them are defined through foreign keys. Recent research on applying machine learning to RDBs has explored graph-based representations of RDBs, where rows of tables are modeled as nodes, and foreign key relationships are modeled as edges. RDB-to-graph modeling helps capture cross-table dependencies, ultimately leading to enhanced performance across diverse tasks. However, there are numerous ways to model RDBs as graphs, and performance varies significantly depending on the chosen graph model. In our analysis, applying a common heuristic rule for graph modeling leads to up to a 10% drop in performance compared to the best-performing graph model, which remains non-trivial to identify. To foster research on intelligent RDB-to-graph modeling, we introduce RDB2G-Bench, the first benchmark framework for evaluating such methods. We construct extensive datasets covering 5 real-world RDBs and 12 predictive tasks, resulting in around 50k graph-performance pairs for efficient and reproducible evaluations. Thanks to our precomputed datasets, we were able to benchmark 9 automatic RDB-to-graph modeling methods on the 12 tasks over 600x faster than on-the-fly evaluation, which requires repeated model training. Our analysis of the datasets and benchmark results reveals key structural patterns affecting graph model effectiveness, along with practical implications for effective graph modeling.

kaistdata KAIST Data Mining Lab
·
Jun 2, 2025

Towards Quantifying Long-Range Interactions in Graph Machine Learning: a Large Graph Dataset and a Measurement

Long-range dependencies are critical for effective graph representation learning, yet most existing datasets focus on small graphs tailored to inductive tasks, offering limited insight into long-range interactions. Current evaluations primarily compare models employing global attention (e.g., graph transformers) with those using local neighborhood aggregation (e.g., message-passing neural networks) without a direct measurement of long-range dependency. In this work, we introduce City-Networks, a novel large-scale transductive learning dataset derived from real-world city roads. This dataset features graphs with over 10^5 nodes and significantly larger diameters than those in existing benchmarks, naturally embodying long-range information. We annotate the graphs using an eccentricity-based approach, ensuring that the classification task inherently requires information from distant nodes. Furthermore, we propose a model-agnostic measurement based on the Jacobians of neighbors from distant hops, offering a principled quantification of long-range dependencies. Finally, we provide theoretical justifications for both our dataset design and the proposed measurement - particularly by focusing on over-smoothing and influence score dilution - which establishes a robust foundation for further exploration of long-range interactions in graph neural networks.

  • 5 authors
·
Mar 11, 2025

LongIns: A Challenging Long-context Instruction-based Exam for LLMs

The long-context capabilities of large language models (LLMs) have been a hot topic in recent years. To evaluate the performance of LLMs in different scenarios, various assessment benchmarks have emerged. However, as most of these benchmarks focus on identifying key information to answer questions, which mainly requires the retrieval ability of LLMs, these benchmarks can partially represent the reasoning performance of LLMs from large amounts of information. Meanwhile, although LLMs often claim to have context windows of 32k, 128k, 200k, or even longer, these benchmarks fail to reveal the actual supported length of these LLMs. To address these issues, we propose the LongIns benchmark dataset, a challenging long-context instruction-based exam for LLMs, which is built based on the existing instruction datasets. Specifically, in our LongIns, we introduce three evaluation settings: Global Instruction & Single Task (GIST), Local Instruction & Single Task (LIST), and Local Instruction & Multiple Tasks (LIMT). Based on LongIns, we perform comprehensive evaluations on existing LLMs and have the following important findings: (1). The top-performing GPT-4 with 128k context length performs poorly on the evaluation context window of 16k in our LongIns. (2). For the multi-hop reasoning ability of many existing LLMs, significant efforts are still needed under short context windows (less than 4k).

  • 10 authors
·
Jun 25, 2024 1

LongGenBench: Long-context Generation Benchmark

Current long-context benchmarks primarily focus on retrieval-based tests, requiring Large Language Models (LLMs) to locate specific information within extensive input contexts, such as the needle-in-a-haystack (NIAH) benchmark. Long-context generation refers to the ability of a language model to generate coherent and contextually accurate text that spans across lengthy passages or documents. While recent studies show strong performance on NIAH and other retrieval-based long-context benchmarks, there is a significant lack of benchmarks for evaluating long-context generation capabilities. To bridge this gap and offer a comprehensive assessment, we introduce a synthetic benchmark, LongGenBench, which allows for flexible configurations of customized generation context lengths. LongGenBench advances beyond traditional benchmarks by redesigning the format of questions and necessitating that LLMs respond with a single, cohesive long-context answer. Upon extensive evaluation using LongGenBench, we observe that: (1) both API accessed and open source models exhibit performance degradation in long-context generation scenarios, ranging from 1.2% to 47.1%; (2) different series of LLMs exhibit varying trends of performance degradation, with the Gemini-1.5-Flash model showing the least degradation among API accessed models, and the Qwen2 series exhibiting the least degradation in LongGenBench among open source models.

  • 4 authors
·
Oct 5, 2024 3

Long Range Arena: A Benchmark for Efficient Transformers

Transformers do not scale very well to long sequence lengths largely because of quadratic self-attention complexity. In the recent months, a wide spectrum of efficient, fast Transformers have been proposed to tackle this problem, more often than not claiming superior or comparable model quality to vanilla Transformer models. To this date, there is no well-established consensus on how to evaluate this class of models. Moreover, inconsistent benchmarking on a wide spectrum of tasks and datasets makes it difficult to assess relative model quality amongst many models. This paper proposes a systematic and unified benchmark, LRA, specifically focused on evaluating model quality under long-context scenarios. Our benchmark is a suite of tasks consisting of sequences ranging from 1K to 16K tokens, encompassing a wide range of data types and modalities such as text, natural, synthetic images, and mathematical expressions requiring similarity, structural, and visual-spatial reasoning. We systematically evaluate ten well-established long-range Transformer models (Reformers, Linformers, Linear Transformers, Sinkhorn Transformers, Performers, Synthesizers, Sparse Transformers, and Longformers) on our newly proposed benchmark suite. LRA paves the way towards better understanding this class of efficient Transformer models, facilitates more research in this direction, and presents new challenging tasks to tackle. Our benchmark code will be released at https://github.com/google-research/long-range-arena.

  • 10 authors
·
Nov 8, 2020

Reasoning Models Reason Well, Until They Don't

Large language models (LLMs) have shown significant progress in reasoning tasks. However, recent studies show that transformers and LLMs fail catastrophically once reasoning problems exceed modest complexity. We revisit these findings through the lens of large reasoning models (LRMs) -- LLMs fine-tuned with incentives for step-by-step argumentation and self-verification. LRM performance on graph and reasoning benchmarks such as NLGraph seem extraordinary, with some even claiming they are capable of generalized reasoning and innovation in reasoning-intensive fields such as mathematics, physics, medicine, and law. However, by more carefully scaling the complexity of reasoning problems, we show existing benchmarks actually have limited complexity. We develop a new dataset, the Deep Reasoning Dataset (DeepRD), along with a generative process for producing unlimited examples of scalable complexity. We use this dataset to evaluate model performance on graph connectivity and natural language proof planning. We find that the performance of LRMs drop abruptly at sufficient complexity and do not generalize. We also relate our LRM results to the distributions of the complexities of large, real-world knowledge graphs, interaction graphs, and proof datasets. We find the majority of real-world examples fall inside the LRMs' success regime, yet the long tails expose substantial failure potential. Our analysis highlights the near-term utility of LRMs while underscoring the need for new methods that generalize beyond the complexity of examples in the training distribution.

  • 5 authors
·
Oct 25, 2025 1

Can Language Models Solve Graph Problems in Natural Language?

Large language models (LLMs) are increasingly adopted for a variety of tasks with implicit graphical structures, such as planning in robotics, multi-hop question answering or knowledge probing, structured commonsense reasoning, and more. While LLMs have advanced the state-of-the-art on these tasks with structure implications, whether LLMs could explicitly process textual descriptions of graphs and structures, map them to grounded conceptual spaces, and perform structured operations remains underexplored. To this end, we propose NLGraph (Natural Language Graph), a comprehensive benchmark of graph-based problem solving designed in natural language. NLGraph contains 29,370 problems, covering eight graph reasoning tasks with varying complexity from simple tasks such as connectivity and shortest path up to complex problems such as maximum flow and simulating graph neural networks. We evaluate LLMs (GPT-3/4) with various prompting approaches on the NLGraph benchmark and find that 1) language models do demonstrate preliminary graph reasoning abilities, 2) the benefit of advanced prompting and in-context learning diminishes on more complex graph problems, while 3) LLMs are also (un)surprisingly brittle in the face of spurious correlations in graph and problem settings. We then propose Build-a-Graph Prompting and Algorithmic Prompting, two instruction-based approaches to enhance LLMs in solving natural language graph problems. Build-a-Graph and Algorithmic prompting improve the performance of LLMs on NLGraph by 3.07% to 16.85% across multiple tasks and settings, while how to solve the most complicated graph reasoning tasks in our setup with language models remains an open research question. The NLGraph benchmark and evaluation code are available at https://github.com/Arthur-Heng/NLGraph.

  • 6 authors
·
May 17, 2023

R-Horizon: How Far Can Your Large Reasoning Model Really Go in Breadth and Depth?

Recent trends in test-time scaling for reasoning models (e.g., OpenAI o1, DeepSeek-R1) have led to remarkable improvements through long Chain-of-Thought (CoT). However, existing benchmarks mainly focus on immediate, single-horizon tasks, failing to adequately evaluate models' ability to understand and respond to complex, long-horizon scenarios. To address this incomplete evaluation of Large Reasoning Models (LRMs), we propose R-HORIZON, a method designed to stimulate long-horizon reasoning behaviors in LRMs through query composition. Based on R-HORIZON, we construct a long-horizon reasoning benchmark, comprising complex multi-step reasoning tasks with interdependent problems that span long reasoning horizons. Through comprehensive evaluation of LRMs using the R-HORIZON benchmark, we find that even the most advanced LRMs suffer significant performance degradation. Our analysis reveals that LRMs exhibit limited effective reasoning length and struggle to allocate thinking budget across multiple problems appropriately. Recognizing these limitations, we use R-HORIZON to construct long-horizon reasoning data for reinforcement learning with verified rewards (RLVR). Compared to training with single-horizon data, RLVR with R-HORIZON not only substantially improves performance on the multi-horizon reasoning tasks, but also promotes accuracy on standard reasoning tasks, with an increase of 7.5 on AIME2024. These results position R-HORIZON as a scalable, controllable, and low-cost paradigm for enhancing and evaluating the long-horizon reasoning capabilities of LRMs.

meituan-longcat LongCat
·
Oct 9, 2025 2

IGL-Bench: Establishing the Comprehensive Benchmark for Imbalanced Graph Learning

Deep graph learning has gained grand popularity over the past years due to its versatility and success in representing graph data across a wide range of domains. However, the pervasive issue of imbalanced graph data distributions, where certain parts exhibit disproportionally abundant data while others remain sparse, undermines the efficacy of conventional graph learning algorithms, leading to biased outcomes. To address this challenge, Imbalanced Graph Learning (IGL) has garnered substantial attention, enabling more balanced data distributions and better task performance. Despite the proliferation of IGL algorithms, the absence of consistent experimental protocols and fair performance comparisons pose a significant barrier to comprehending advancements in this field. To bridge this gap, we introduce IGL-Bench, a foundational comprehensive benchmark for imbalanced graph learning, embarking on 16 diverse graph datasets and 24 distinct IGL algorithms with uniform data processing and splitting strategies. Specifically, IGL-Bench systematically investigates state-of-the-art IGL algorithms in terms of effectiveness, robustness, and efficiency on node-level and graph-level tasks, with the scope of class-imbalance and topology-imbalance. Extensive experiments demonstrate the potential benefits of IGL algorithms on various imbalanced conditions, offering insights and opportunities in the IGL field. Further, we have developed an open-sourced and unified package to facilitate reproducible evaluation and inspire further innovative research, which is available at https://github.com/RingBDStack/IGL-Bench.

  • 11 authors
·
Jun 14, 2024

GraphICL: Unlocking Graph Learning Potential in LLMs through Structured Prompt Design

The growing importance of textual and relational systems has driven interest in enhancing large language models (LLMs) for graph-structured data, particularly Text-Attributed Graphs (TAGs), where samples are represented by textual descriptions interconnected by edges. While research has largely focused on developing specialized graph LLMs through task-specific instruction tuning, a comprehensive benchmark for evaluating LLMs solely through prompt design remains surprisingly absent. Without such a carefully crafted evaluation benchmark, most if not all, tailored graph LLMs are compared against general LLMs using simplistic queries (e.g., zero-shot reasoning with LLaMA), which can potentially camouflage many advantages as well as unexpected predicaments of them. To achieve more general evaluations and unveil the true potential of LLMs for graph tasks, we introduce Graph In-context Learning (GraphICL) Benchmark, a comprehensive benchmark comprising novel prompt templates designed to capture graph structure and handle limited label knowledge. Our systematic evaluation shows that general-purpose LLMs equipped with our GraphICL outperform state-of-the-art specialized graph LLMs and graph neural network models in resource-constrained settings and out-of-domain tasks. These findings highlight the significant potential of prompt engineering to enhance LLM performance on graph learning tasks without training and offer a strong baseline for advancing research in graph LLMs.

  • 5 authors
·
Jan 26, 2025

GraphFM: A Comprehensive Benchmark for Graph Foundation Model

Foundation Models (FMs) serve as a general class for the development of artificial intelligence systems, offering broad potential for generalization across a spectrum of downstream tasks. Despite extensive research into self-supervised learning as the cornerstone of FMs, several outstanding issues persist in Graph Foundation Models that rely on graph self-supervised learning, namely: 1) Homogenization. The extent of generalization capability on downstream tasks remains unclear. 2) Scalability. It is unknown how effectively these models can scale to large datasets. 3) Efficiency. The training time and memory usage of these models require evaluation. 4) Training Stop Criteria. Determining the optimal stopping strategy for pre-training across multiple tasks to maximize performance on downstream tasks. To address these questions, we have constructed a rigorous benchmark that thoroughly analyzes and studies the generalization and scalability of self-supervised Graph Neural Network (GNN) models. Regarding generalization, we have implemented and compared the performance of various self-supervised GNN models, trained to generate node representations, across tasks such as node classification, link prediction, and node clustering. For scalability, we have compared the performance of various models after training using full-batch and mini-batch strategies. Additionally, we have assessed the training efficiency of these models by conducting experiments to test their GPU memory usage and throughput. Through these experiments, we aim to provide insights to motivate future research. The code for this benchmark is publicly available at https://github.com/NYUSHCS/GraphFM.

  • 7 authors
·
Jun 12, 2024

ExpertLongBench: Benchmarking Language Models on Expert-Level Long-Form Generation Tasks with Structured Checklists

This paper introduces ExpertLongBench, an expert-level benchmark containing 11 tasks from 9 domains that reflect realistic expert workflows and applications. Beyond question answering, the application-driven tasks in ExpertLongBench demand long-form outputs that can exceed 5,000 tokens and strict adherence to domain-specific requirements. Notably, each task in ExpertLongBench includes a rubric, designed or validated by domain experts, to specify task requirements and guide output evaluation. Furthermore, we propose CLEAR, an evaluation framework that supports accurate evaluation of long-form model outputs in our benchmark. To achieve fine-grained, expert-aligned evaluation, CLEAR derives checklists from both model outputs and references by extracting information corresponding to items in the task-specific rubric. Checklist items for model outputs are then compared with corresponding items for reference outputs to assess their correctness, enabling grounded evaluation. We benchmark 11 large language models (LLMs) and analyze components in CLEAR, showing that (1) existing LLMs, with the top performer achieving only a 26.8% F1 score, require significant improvement for expert-level tasks; (2) models can generate content corresponding to the required aspects, though often not accurately; and (3) accurate checklist extraction and comparison in CLEAR can be achieved by open-weight models for more scalable and low-cost usage.

  • 17 authors
·
Jun 1, 2025 2

Invariant Feature Learning for Generalized Long-Tailed Classification

Existing long-tailed classification (LT) methods only focus on tackling the class-wise imbalance that head classes have more samples than tail classes, but overlook the attribute-wise imbalance. In fact, even if the class is balanced, samples within each class may still be long-tailed due to the varying attributes. Note that the latter is fundamentally more ubiquitous and challenging than the former because attributes are not just implicit for most datasets, but also combinatorially complex, thus prohibitively expensive to be balanced. Therefore, we introduce a novel research problem: Generalized Long-Tailed classification (GLT), to jointly consider both kinds of imbalances. By "generalized", we mean that a GLT method should naturally solve the traditional LT, but not vice versa. Not surprisingly, we find that most class-wise LT methods degenerate in our proposed two benchmarks: ImageNet-GLT and MSCOCO-GLT. We argue that it is because they over-emphasize the adjustment of class distribution while neglecting to learn attribute-invariant features. To this end, we propose an Invariant Feature Learning (IFL) method as the first strong baseline for GLT. IFL first discovers environments with divergent intra-class distributions from the imperfect predictions and then learns invariant features across them. Promisingly, as an improved feature backbone, IFL boosts all the LT line-up: one/two-stage re-balance, augmentation, and ensemble. Codes and benchmarks are available on Github: https://github.com/KaihuaTang/Generalized-Long-Tailed-Benchmarks.pytorch

  • 5 authors
·
Oct 11, 2025

Graph Transformers for Large Graphs

Transformers have recently emerged as powerful neural networks for graph learning, showcasing state-of-the-art performance on several graph property prediction tasks. However, these results have been limited to small-scale graphs, where the computational feasibility of the global attention mechanism is possible. The next goal is to scale up these architectures to handle very large graphs on the scale of millions or even billions of nodes. With large-scale graphs, global attention learning is proven impractical due to its quadratic complexity w.r.t. the number of nodes. On the other hand, neighborhood sampling techniques become essential to manage large graph sizes, yet finding the optimal trade-off between speed and accuracy with sampling techniques remains challenging. This work advances representation learning on single large-scale graphs with a focus on identifying model characteristics and critical design constraints for developing scalable graph transformer (GT) architectures. We argue such GT requires layers that can adeptly learn both local and global graph representations while swiftly sampling the graph topology. As such, a key innovation of this work lies in the creation of a fast neighborhood sampling technique coupled with a local attention mechanism that encompasses a 4-hop reception field, but achieved through just 2-hop operations. This local node embedding is then integrated with a global node embedding, acquired via another self-attention layer with an approximate global codebook, before finally sent through a downstream layer for node predictions. The proposed GT framework, named LargeGT, overcomes previous computational bottlenecks and is validated on three large-scale node classification benchmarks. We report a 3x speedup and 16.8% performance gain on ogbn-products and snap-patents, while we also scale LargeGT on ogbn-papers100M with a 5.9% performance improvement.

  • 6 authors
·
Dec 18, 2023

LongBench: A Bilingual, Multitask Benchmark for Long Context Understanding

Although large language models (LLMs) demonstrate impressive performance for many language tasks, most of them can only handle texts a few thousand tokens long, limiting their applications on longer sequence inputs, such as books, reports, and codebases. Recent works have proposed methods to improve LLMs' long context capabilities by extending context windows and more sophisticated memory mechanisms. However, comprehensive benchmarks tailored for evaluating long context understanding are lacking. In this paper, we introduce LongBench, the first bilingual, multi-task benchmark for long context understanding, enabling a more rigorous evaluation of long context understanding. LongBench comprises 21 datasets across 6 task categories in both English and Chinese, with an average length of 6,711 words (English) and 13,386 characters (Chinese). These tasks cover key long-text application areas including single-doc QA, multi-doc QA, summarization, few-shot learning, synthetic tasks, and code completion. All datasets in LongBench are standardized into a unified format, allowing for effortless automatic evaluation of LLMs. Upon comprehensive evaluation of 8 LLMs on LongBench, we find that: (1) Commercial model (GPT-3.5-Turbo-16k) outperforms other open-sourced models, but still struggles on longer contexts. (2) Scaled position embedding and fine-tuning on longer sequences lead to substantial improvement on long context understanding. (3) Context compression technique such as retrieval brings improvement for model with weak ability on long contexts, but the performance still lags behind models that have strong long context understanding capability. The code and datasets are available at https://github.com/THUDM/LongBench.

  • 13 authors
·
Aug 28, 2023

GB-LSR: A Fast Local Spectral Image Representation with a Single Global Bandwidth for Continuous Reconstruction and Super-Resolution

We present GB-LSR (Global-Bandwidth Local Spectral Representation), a fixed-grid local spectral representation for continuous image reconstruction. The image domain is partitioned into non-overlapping square patches, each carrying coefficients for a truncated Fourier basis predicted from shared convolutional-encoder features. A single trainable scalar bandwidth is shared globally across all patches and images, and reconstruction at any continuous coordinate is a fixed-size basis contraction whose cost is independent of image size. We study three bandwidth-handling variants: a trainable global scalar (main), a fixed global scalar, and a per-patch bandwidth field. On a standardized native-reconstruction benchmark across Kodak, Set14, and Urban100, the main variant outperforms matched-budget amortized LIIF / LTE / WIRE re-implementations by 2.8-3.6 dB PSNR and 0.11-0.15 LPIPS, while running at roughly one-quarter of the slowest baseline's inference cost. The single global scalar suffices empirically: per-patch adaptive-bandwidth alternatives do not improve over it on either a closed-form locality diagnostic or an end-to-end ablation. In a separate arbitrary-scale super-resolution (ASR) extension, GB-LSR achieves competitive PSNR-Y under a canonical-style SR protocol and runs 1.44x faster than LIIF-RDN and 3.25x faster than LTE-SwinIR at x4; within the same extension, a variant trained and evaluated without 4-corner local-ensemble averaging gives a 1.77x speedup with 35% lower peak memory and negligible PSNR change, while additionally widening the RDN encoder from 64 to 96 channels gives a small positive PSNR shift with a 1.58x speedup and 31% lower peak memory. Native-reconstruction claims are scoped to the matched-budget amortized protocol, and ASR claims are scoped to a separate canonical-style SR protocol.

  • 2 authors
·
Jun 16

BlockVid: Block Diffusion for High-Quality and Consistent Minute-Long Video Generation

Generating minute-long videos is a critical step toward developing world models, providing a foundation for realistic extended scenes and advanced AI simulators. The emerging semi-autoregressive (block diffusion) paradigm integrates the strengths of diffusion and autoregressive models, enabling arbitrary-length video generation and improving inference efficiency through KV caching and parallel sampling. However, it yet faces two enduring challenges: (i) KV-cache-induced long-horizon error accumulation, and (ii) the lack of fine-grained long-video benchmarks and coherence-aware metrics. To overcome these limitations, we propose BlockVid, a novel block diffusion framework equipped with semantic-aware sparse KV cache, an effective training strategy called Block Forcing, and dedicated chunk-wise noise scheduling and shuffling to reduce error propagation and enhance temporal consistency. We further introduce LV-Bench, a fine-grained benchmark for minute-long videos, complete with new metrics evaluating long-range coherence. Extensive experiments on VBench and LV-Bench demonstrate that BlockVid consistently outperforms existing methods in generating high-quality, coherent minute-long videos. In particular, it achieves a 22.2% improvement on VDE Subject and a 19.4% improvement on VDE Clarity in LV-Bench over the state of the art approaches. Project website: https://ziplab.co/BlockVid. Inferix (Code): https://github.com/alibaba-damo-academy/Inferix.

Alibaba-DAMO-Academy DAMO Academy
·
Nov 28, 2025 2

LongHealth: A Question Answering Benchmark with Long Clinical Documents

Background: Recent advancements in large language models (LLMs) offer potential benefits in healthcare, particularly in processing extensive patient records. However, existing benchmarks do not fully assess LLMs' capability in handling real-world, lengthy clinical data. Methods: We present the LongHealth benchmark, comprising 20 detailed fictional patient cases across various diseases, with each case containing 5,090 to 6,754 words. The benchmark challenges LLMs with 400 multiple-choice questions in three categories: information extraction, negation, and sorting, challenging LLMs to extract and interpret information from large clinical documents. Results: We evaluated nine open-source LLMs with a minimum of 16,000 tokens and also included OpenAI's proprietary and cost-efficient GPT-3.5 Turbo for comparison. The highest accuracy was observed for Mixtral-8x7B-Instruct-v0.1, particularly in tasks focused on information retrieval from single and multiple patient documents. However, all models struggled significantly in tasks requiring the identification of missing information, highlighting a critical area for improvement in clinical data interpretation. Conclusion: While LLMs show considerable potential for processing long clinical documents, their current accuracy levels are insufficient for reliable clinical use, especially in scenarios requiring the identification of missing information. The LongHealth benchmark provides a more realistic assessment of LLMs in a healthcare setting and highlights the need for further model refinement for safe and effective clinical application. We make the benchmark and evaluation code publicly available.

  • 10 authors
·
Jan 25, 2024

BOND: Benchmarking Unsupervised Outlier Node Detection on Static Attributed Graphs

Detecting which nodes in graphs are outliers is a relatively new machine learning task with numerous applications. Despite the proliferation of algorithms developed in recent years for this task, there has been no standard comprehensive setting for performance evaluation. Consequently, it has been difficult to understand which methods work well and when under a broad range of settings. To bridge this gap, we present--to the best of our knowledge--the first comprehensive benchmark for unsupervised outlier node detection on static attributed graphs called BOND, with the following highlights. (1) We benchmark the outlier detection performance of 14 methods ranging from classical matrix factorization to the latest graph neural networks. (2) Using nine real datasets, our benchmark assesses how the different detection methods respond to two major types of synthetic outliers and separately to "organic" (real non-synthetic) outliers. (3) Using an existing random graph generation technique, we produce a family of synthetically generated datasets of different graph sizes that enable us to compare the running time and memory usage of the different outlier detection algorithms. Based on our experimental results, we discuss the pros and cons of existing graph outlier detection algorithms, and we highlight opportunities for future research. Importantly, our code is freely available and meant to be easily extendable: https://github.com/pygod-team/pygod/tree/main/benchmark

  • 15 authors
·
Oct 15, 2022

Latent Performance Profiling of Large Language Models

Large language models (LLMs) frequently achieve impressive scores on standardized benchmarks, yet accuracy alone offers a limited view of their capabilities. Evaluating open-source LLMs through leaderboards faces persistent issues like data contamination, narrow task scope, and weak alignment with real-world reliability. Benchmark-based evaluations such as MMLU PRO, BBH, or IFEval primarily capture what a model outputs on fixed test sets, not how it processes information, calibrates uncertainty, or structures internal knowledge. In this article, we advocate for a shift from benchmark-centric evaluation toward a complementary, state-centered intrinsic assessment of LLMs. To this end, we introduce Latent Performance Profiling (LPP) -- a framework that derives task-agnostic diagnostics from hidden activations and output distributions. LPP defines a set of scalar metrics on a model's latent representations and dynamics, revealing scale-independent traits that enable interpretable comparisons and uncover hidden vulnerabilities. Unlike static accuracy scores, LPP provides stable, architecture-sensitive signatures across models of similar size. With extensive empirical analyses across eight LLMs, spanning a size range of 0.5B-14B, we demonstrate that models with similar benchmark scores can exhibit contrasting latent profiles, such as differences in entropy or adaptability. Guided by these insights, we design synthetic probes for uncertainty and symbolic reasoning that align with intrinsic metrics while decoupling from leaderboard bias. We recommend that reporting LPP alongside benchmarks provides a deeper, interpretable understanding of model behavior, enabling more reliable model selection, safety assessment, and evaluation beyond surface-level accuracy.

  • 10 authors
·
May 28

How do Scaling Laws Apply to Knowledge Graph Engineering Tasks? The Impact of Model Size on Large Language Model Performance

When using Large Language Models (LLMs) to support Knowledge Graph Engineering (KGE), one of the first indications when searching for an appropriate model is its size. According to the scaling laws, larger models typically show higher capabilities. However, in practice, resource costs are also an important factor and thus it makes sense to consider the ratio between model performance and costs. The LLM-KG-Bench framework enables the comparison of LLMs in the context of KGE tasks and assesses their capabilities of understanding and producing KGs and KG queries. Based on a dataset created in an LLM-KG-Bench run covering 26 open state-of-the-art LLMs, we explore the model size scaling laws specific to KGE tasks. In our analyses, we assess how benchmark scores evolve between different model size categories. Additionally, we inspect how the general score development of single models and families of models correlates to their size. Our analyses revealed that, with a few exceptions, the model size scaling laws generally also apply to the selected KGE tasks. However, in some cases, plateau or ceiling effects occurred, i.e., the task performance did not change much between a model and the next larger model. In these cases, smaller models could be considered to achieve high cost-effectiveness. Regarding models of the same family, sometimes larger models performed worse than smaller models of the same family. These effects occurred only locally. Hence it is advisable to additionally test the next smallest and largest model of the same family.

  • 5 authors
·
May 22, 2025

TGB 2.0: A Benchmark for Learning on Temporal Knowledge Graphs and Heterogeneous Graphs

Multi-relational temporal graphs are powerful tools for modeling real-world data, capturing the evolving and interconnected nature of entities over time. Recently, many novel models are proposed for ML on such graphs intensifying the need for robust evaluation and standardized benchmark datasets. However, the availability of such resources remains scarce and evaluation faces added complexity due to reproducibility issues in experimental protocols. To address these challenges, we introduce Temporal Graph Benchmark 2.0 (TGB 2.0), a novel benchmarking framework tailored for evaluating methods for predicting future links on Temporal Knowledge Graphs and Temporal Heterogeneous Graphs with a focus on large-scale datasets, extending the Temporal Graph Benchmark. TGB 2.0 facilitates comprehensive evaluations by presenting eight novel datasets spanning five domains with up to 53 million edges. TGB 2.0 datasets are significantly larger than existing datasets in terms of number of nodes, edges, or timestamps. In addition, TGB 2.0 provides a reproducible and realistic evaluation pipeline for multi-relational temporal graphs. Through extensive experimentation, we observe that 1) leveraging edge-type information is crucial to obtain high performance, 2) simple heuristic baselines are often competitive with more complex methods, 3) most methods fail to run on our largest datasets, highlighting the need for research on more scalable methods.

  • 12 authors
·
Oct 17, 2024

GraphRouter: A Graph-based Router for LLM Selections

The rapidly growing number and variety of Large Language Models (LLMs) present significant challenges in efficiently selecting the appropriate LLM for a given query, especially considering the trade-offs between performance and computational cost. Current LLM selection methods often struggle to generalize across new LLMs and different tasks because of their limited ability to leverage contextual interactions among tasks, queries, and LLMs, as well as their dependence on a transductive learning framework. To address these shortcomings, we introduce a novel inductive graph framework, named as GraphRouter, which fully utilizes the contextual information among tasks, queries, and LLMs to enhance the LLM selection process. GraphRouter constructs a heterogeneous graph comprising task, query, and LLM nodes, with interactions represented as edges, which efficiently captures the contextual information between the query's requirements and the LLM's capabilities. Through an innovative edge prediction mechanism, GraphRouter is able to predict attributes (the effect and cost of LLM response) of potential edges, allowing for optimized recommendations that adapt to both existing and newly introduced LLMs without requiring retraining. Comprehensive experiments across three distinct effect-cost weight scenarios have shown that GraphRouter substantially surpasses existing routers, delivering a minimum performance improvement of 12.3%. In addition, it achieves enhanced generalization across new LLMs settings and supports diverse tasks with at least a 9.5% boost in effect and a significant reduction in computational demands. This work endeavors to apply a graph-based approach for the contextual and adaptive selection of LLMs, offering insights for real-world applications. Our codes for GraphRouter is released at https://github.com/ulab-uiuc/GraphRouter.

  • 3 authors
·
Oct 4, 2024

LongStraw: Long-Context RL Beyond 2M Tokens under a Fixed GPU Budget

A growing gap separates inference context lengths from RL post-training: inference systems are approaching million-token contexts, while post-training workloads often remain at 256K tokens or below and rely on length generalization at deployment. The gap is especially important for AI agents, whose observations, tool outputs, documents, and prior decisions accumulate over long trajectories. LongStraw is an architecture-aware execution stack for million-token RL post-training under a fixed GPU budget, instantiated with Group Relative Policy Optimization (GRPO). It evaluates the shared prompt without autograd, retains only model-specific state needed by later tokens, and replays short response branches one at a time, reducing the live training graph at the cost of additional replay time. We implement it for the hybrid recurrent and full-attention Qwen3.6-27B and the compressed-attention mixture-of-experts GLM-5.2. On eight H20 GPUs, LongStraw completes grouped Qwen scoring and response backward at 2.1M positions for groups of 2 and 8; increasing the group size adds only 0.21 GB of peak allocated memory, while a separate stress test reaches 4.46M positions. On 32 H20 GPUs, we validate the end-to-end LongStraw execution path for a 2.1M-token prompt across all 78 layers of GLM-5.2. These experiments establish execution capacity rather than complete training correctness because the captured prompt state is detached and some distributed forward and gradient composition paths remain incomplete.

mindlab-research Mind Lab
·
Jul 15 3

Large Generative Graph Models

Large Generative Models (LGMs) such as GPT, Stable Diffusion, Sora, and Suno are trained on a huge amount of language corpus, images, videos, and audio that are extremely diverse from numerous domains. This training paradigm over diverse well-curated data lies at the heart of generating creative and sensible content. However, all previous graph generative models (e.g., GraphRNN, MDVAE, MoFlow, GDSS, and DiGress) have been trained only on one dataset each time, which cannot replicate the revolutionary success achieved by LGMs in other fields. To remedy this crucial gap, we propose a new class of graph generative model called Large Graph Generative Model (LGGM) that is trained on a large corpus of graphs (over 5000 graphs) from 13 different domains. We empirically demonstrate that the pre-trained LGGM has superior zero-shot generative capability to existing graph generative models. Furthermore, our pre-trained LGGM can be easily fine-tuned with graphs from target domains and demonstrate even better performance than those directly trained from scratch, behaving as a solid starting point for real-world customization. Inspired by Stable Diffusion, we further equip LGGM with the capability to generate graphs given text prompts (Text-to-Graph), such as the description of the network name and domain (i.e., "The power-1138-bus graph represents a network of buses in a power distribution system."), and network statistics (i.e., "The graph has a low average degree, suitable for modeling social media interactions."). This Text-to-Graph capability integrates the extensive world knowledge in the underlying language model, offering users fine-grained control of the generated graphs. We release the code, the model checkpoint, and the datasets at https://lggm-lg.github.io/.

  • 9 authors
·
Jun 7, 2024

TwinRouterBench: Fast Static and Live Dynamic Evaluation for Realistic Agentic LLM Routing

LLM routing matters most in long-horizon applications such as coding agents, deep research systems, and computer-use agents, where a single user request triggers many model calls. Routing each call to the cheapest sufficient model can cut costs without sacrificing quality, yet existing router benchmarks evaluate routers only on one-shot prompts. They never expose the router-visible prefix at an intermediate agent step, never test whether a cheaper replacement preserves downstream task success, and often rely on online LLM judges at evaluation time. We introduce TwinRouterBench, a step-level routing benchmark with two tracks. The static track provides 970 router-visible prefixes from 520 instances across SWE-bench, BFCL, mtRAG, QMSum, and PinchBench, each paired with an execution-verified target tier estimated under a released downgrade-and-cascade protocol; scoring is deterministic arithmetic over tier labels, trajectory membership, and token costs, with no online evaluator-side LLM judge. The dynamic track supplies a harness that runs routers on the full 500-case SWE-bench Verified suite; in this paper we report a 100-case held-out evaluation disjoint from the static SWE supervision split. At each LLM call the router selects a concrete model from a locked pool, and success is measured by official task resolution and realized API spend. The two tracks support fast offline iteration followed by end-to-end validation under live agent execution. Code and data are available at https://github.com/CommonstackAI/TwinRouterBench.

  • 17 authors
·
May 13

Graph-R1: Unleashing LLM Reasoning with NP-Hard Graph Problems

Reasoning Large Language Models (RLLMs) have recently achieved remarkable progress on complex reasoning tasks, largely enabled by their long chain-of-thought (Long CoT) capabilities. However, developing these Long CoT behaviors relies heavily on post-training with high-quality datasets, which are typically costly and human-curated (e.g., mathematics and code), leaving scalable alternatives unexplored. In this work, we introduce NP-hard (NPH) graph problems as a novel synthetic training corpus, as they inherently require deep reasoning, extensive exploration, and reflective strategies, which are core characteristics of Long CoT reasoning. Building on this insight, we develop a two-stage post-training framework: (i) Long CoT Supervised Fine-Tuning (SFT) on rejection-sampled NPH graph instances, which substantially enhances reasoning depth, and (ii) Reinforcement Learning (RL) with a fine-grained reward design, which sharpens reasoning efficiency. Our flagship model, Graph-R1-7B, demonstrates strong generalization across mathematics, coding, STEM, and logic, and surpasses QwQ-32B on NPH graph problems in both accuracy and reasoning efficiency. These results position NPH graph problems as an effective and scalable resource for advancing Long CoT reasoning in LLMs, opening a new frontier for LLM post-training. Our implementation is available at https://github.com/Graph-Reasoner/Graph-R1, with models and datasets hosted in our Hugging Face collection HKUST-DSAIL/Graph-R1.

  • 7 authors
·
Aug 27, 2025

Cluster-GCN: An Efficient Algorithm for Training Deep and Large Graph Convolutional Networks

Graph convolutional network (GCN) has been successfully applied to many graph-based applications; however, training a large-scale GCN remains challenging. Current SGD-based algorithms suffer from either a high computational cost that exponentially grows with number of GCN layers, or a large space requirement for keeping the entire graph and the embedding of each node in memory. In this paper, we propose Cluster-GCN, a novel GCN algorithm that is suitable for SGD-based training by exploiting the graph clustering structure. Cluster-GCN works as the following: at each step, it samples a block of nodes that associate with a dense subgraph identified by a graph clustering algorithm, and restricts the neighborhood search within this subgraph. This simple but effective strategy leads to significantly improved memory and computational efficiency while being able to achieve comparable test accuracy with previous algorithms. To test the scalability of our algorithm, we create a new Amazon2M data with 2 million nodes and 61 million edges which is more than 5 times larger than the previous largest publicly available dataset (Reddit). For training a 3-layer GCN on this data, Cluster-GCN is faster than the previous state-of-the-art VR-GCN (1523 seconds vs 1961 seconds) and using much less memory (2.2GB vs 11.2GB). Furthermore, for training 4 layer GCN on this data, our algorithm can finish in around 36 minutes while all the existing GCN training algorithms fail to train due to the out-of-memory issue. Furthermore, Cluster-GCN allows us to train much deeper GCN without much time and memory overhead, which leads to improved prediction accuracy---using a 5-layer Cluster-GCN, we achieve state-of-the-art test F1 score 99.36 on the PPI dataset, while the previous best result was 98.71 by [16]. Our codes are publicly available at https://github.com/google-research/google-research/tree/master/cluster_gcn.

  • 6 authors
·
Aug 7, 2019

LongBench Pro: A More Realistic and Comprehensive Bilingual Long-Context Evaluation Benchmark

The rapid expansion of context length in large language models (LLMs) has outpaced existing evaluation benchmarks. Current long-context benchmarks often trade off scalability and realism: synthetic tasks underrepresent real-world complexity, while fully manual annotation is costly to scale to extreme lengths and diverse scenarios. We present LongBench Pro, a more realistic and comprehensive bilingual benchmark of 1,500 naturally occurring long-context samples in English and Chinese spanning 11 primary tasks and 25 secondary tasks, with input lengths from 8k to 256k tokens. LongBench Pro supports fine-grained analysis with task-specific metrics and a multi-dimensional taxonomy of context requirement (full vs. partial dependency), length (six levels), and difficulty (four levels calibrated by model performance). To balance quality with scalability, we propose a Human-Model Collaborative Construction pipeline: frontier LLMs draft challenging questions and reference answers, along with design rationales and solution processes, to reduce the cost of expert verification. Experts then rigorously validate correctness and refine problematic cases. Evaluating 46 widely used long-context LLMs on LongBench Pro yields three findings: (1) long-context optimization contributes more to long-context comprehension than parameter scaling; (2) effective context length is typically shorter than the claimed context length, with pronounced cross-lingual misalignment; and (3) the "thinking" paradigm helps primarily models trained with native reasoning, while mixed-thinking designs offer a promising Pareto trade-off. In summary, LongBench Pro provides a robust testbed for advancing long-context understanding.

  • 7 authors
·
Jan 6

The Final-Stage Bottleneck: A Systematic Dissection of the R-Learner for Network Causal Inference

The R-Learner is a powerful, theoretically-grounded framework for estimating heterogeneous treatment effects, prized for its robustness to nuisance model errors. However, its application to network data, where causal heterogeneity is often graph-dependent, presents a critical challenge to its core assumption of a well-specified final-stage model. In this paper, we conduct a large-scale empirical study to systematically dissect the R-Learner framework on graphs. We provide the first rigorous evidence that the primary driver of performance is the inductive bias of the final-stage CATE estimator, an effect that dominates the choice of nuisance models. Our central finding is the quantification of a catastrophic "representation bottleneck": we prove with overwhelming statistical significance (p < 0.001) that R-Learners with a graph-blind final stage fail completely (MSE > 4.0), even when paired with powerful GNN nuisance models. Conversely, our proposed end-to-end Graph R-Learner succeeds and significantly outperforms a strong, non-DML GNN T-Learner baseline. Furthermore, we identify and provide a mechanistic explanation for a subtle, topology-dependent "nuisance bottleneck," linking it to GNN over-squashing via a targeted "Hub-Periphery Trade-off" analysis. Our findings are validated across diverse synthetic and semi-synthetic benchmarks. We release our code as a reproducible benchmark to facilitate future research on this critical "final-stage bottleneck."

  • 3 authors
·
Nov 17, 2025

Long-context LLMs Struggle with Long In-context Learning

Large Language Models (LLMs) have made significant strides in handling long sequences exceeding 32K tokens. However, their performance evaluation has largely been confined to metrics like perplexity and synthetic tasks, which may not fully capture their abilities in more nuanced, real-world scenarios. This study introduces a specialized benchmark (LIConBench) focusing on long in-context learning within the realm of extreme-label classification. We meticulously selected six datasets with a label range spanning 28 to 174 classes covering different input (few-shot demonstration) length from 2K to 50K. Our benchmark requires LLMs to comprehend the entire input to recognize the massive label spaces to make correct prediction. We evaluate 13 long-context LLMs on our benchmarks. We find that the long-context LLMs perform relatively well under the token length of 20K and the performance benefits from utilizing the long context window. However, after the context window exceeds 20K, most LLMs except GPT-4 will dip dramatically. This suggests a notable gap in current LLM capabilities for processing and understanding long, context-rich sequences. Further analysis revealed a tendency among models to favor predictions for labels presented towards the end at the sequence. Their ability to reason over multiple pieces in the long sequence is yet to be improved. Our study reveals that long context understanding and reasoning is still a challenging task for the existing LLMs. We believe LIConBench could serve as a more realistic evaluation for the future long context LLMs.

  • 5 authors
·
Apr 2, 2024 4

Benchmarking Graph Neural Networks

In the last few years, graph neural networks (GNNs) have become the standard toolkit for analyzing and learning from data on graphs. This emerging field has witnessed an extensive growth of promising techniques that have been applied with success to computer science, mathematics, biology, physics and chemistry. But for any successful field to become mainstream and reliable, benchmarks must be developed to quantify progress. This led us in March 2020 to release a benchmark framework that i) comprises of a diverse collection of mathematical and real-world graphs, ii) enables fair model comparison with the same parameter budget to identify key architectures, iii) has an open-source, easy-to-use and reproducible code infrastructure, and iv) is flexible for researchers to experiment with new theoretical ideas. As of December 2022, the GitHub repository has reached 2,000 stars and 380 forks, which demonstrates the utility of the proposed open-source framework through the wide usage by the GNN community. In this paper, we present an updated version of our benchmark with a concise presentation of the aforementioned framework characteristics, an additional medium-sized molecular dataset AQSOL, similar to the popular ZINC, but with a real-world measured chemical target, and discuss how this framework can be leveraged to explore new GNN designs and insights. As a proof of value of our benchmark, we study the case of graph positional encoding (PE) in GNNs, which was introduced with this benchmark and has since spurred interest of exploring more powerful PE for Transformers and GNNs in a robust experimental setting.

  • 6 authors
·
Mar 2, 2020

A Benchmark and Agentic Framework for Omni-Modal Reasoning and Tool Use in Long Videos

Long-form multimodal video understanding requires integrating vision, speech, and ambient audio with coherent long-range reasoning. Existing benchmarks emphasize either temporal length or multimodal richness, but rarely both and while some incorporate open-ended questions and advanced metrics, they mostly rely on single-score accuracy, obscuring failure modes. We introduce LongShOTBench, a diagnostic benchmark with open-ended, intent-driven questions; single- and multi-turn dialogues; and tasks requiring multimodal reasoning and agentic tool use across video, audio, and speech. Each item includes a reference answer and graded rubric for interpretable, and traceable evaluation. LongShOTBench is produced via a scalable, human-validated pipeline to ensure coverage and reproducibility. All samples in our LongShOTBench are human-verified and corrected. Furthermore, we present LongShOTAgent, an agentic system that analyzes long videos via preprocessing, search, and iterative refinement. On LongShOTBench, state-of-the-art MLLMs show large gaps: Gemini-2.5-Flash achieves 52.95%, open-source models remain below 30%, and LongShOTAgent attains 44.66%. These results underscore the difficulty of real-world long-form video understanding. LongShOTBench provides a practical, reproducible foundation for evaluating and improving MLLMs. All resources are available on GitHub: https://github.com/mbzuai-oryx/longshot.

LongVideoBench: A Benchmark for Long-context Interleaved Video-Language Understanding

Large multimodal models (LMMs) are processing increasingly longer and richer inputs. Albeit the progress, few public benchmark is available to measure such development. To mitigate this gap, we introduce LongVideoBench, a question-answering benchmark that features video-language interleaved inputs up to an hour long. Our benchmark includes 3,763 varying-length web-collected videos with their subtitles across diverse themes, designed to comprehensively evaluate LMMs on long-term multimodal understanding. To achieve this, we interpret the primary challenge as to accurately retrieve and reason over detailed multimodal information from long inputs. As such, we formulate a novel video question-answering task termed referring reasoning. Specifically, as part of the question, it contains a referring query that references related video contexts, called referred context. The model is then required to reason over relevant video details from the referred context. Following the paradigm of referring reasoning, we curate 6,678 human-annotated multiple-choice questions in 17 fine-grained categories, establishing one of the most comprehensive benchmarks for long-form video understanding. Evaluations suggest that the LongVideoBench presents significant challenges even for the most advanced proprietary models (e.g. GPT-4o, Gemini-1.5-Pro, GPT-4-Turbo), while their open-source counterparts show an even larger performance gap. In addition, our results indicate that model performance on the benchmark improves only when they are capable of processing more frames, positioning LongVideoBench as a valuable benchmark for evaluating future-generation long-context LMMs.

  • 4 authors
·
Jul 22, 2024 4

G1: Teaching LLMs to Reason on Graphs with Reinforcement Learning

Although Large Language Models (LLMs) have demonstrated remarkable progress, their proficiency in graph-related tasks remains notably limited, hindering the development of truly general-purpose models. Previous attempts, including pretraining graph foundation models or employing supervised fine-tuning, often face challenges such as the scarcity of large-scale, universally represented graph data. We introduce G1, a simple yet effective approach demonstrating that Reinforcement Learning (RL) on synthetic graph-theoretic tasks can significantly scale LLMs' graph reasoning abilities. To enable RL training, we curate Erd\~os, the largest graph reasoning dataset to date comprising 50 diverse graph-theoretic tasks of varying difficulty levels, 100k training data and 5k test data, all drived from real-world graphs. With RL on Erd\~os, G1 obtains substantial improvements in graph reasoning, where our finetuned 3B model even outperforms Qwen2.5-72B-Instruct (24x size). RL-trained models also show strong zero-shot generalization to unseen tasks, domains, and graph encoding schemes, including other graph-theoretic benchmarks as well as real-world node classification and link prediction tasks, without compromising general reasoning abilities. Our findings offer an efficient, scalable path for building strong graph reasoners by finetuning LLMs with RL on graph-theoretic tasks, which combines the strengths of pretrained LLM capabilities with abundant, automatically generated synthetic data, suggesting that LLMs possess graph understanding abilities that RL can elicit successfully.

  • 5 authors
·
May 24, 2025

When to use Graphs in RAG: A Comprehensive Analysis for Graph Retrieval-Augmented Generation

Graph retrieval-augmented generation (GraphRAG) has emerged as a powerful paradigm for enhancing large language models (LLMs) with external knowledge. It leverages graphs to model the hierarchical structure between specific concepts, enabling more coherent and effective knowledge retrieval for accurate reasoning.Despite its conceptual promise, recent studies report that GraphRAG frequently underperforms vanilla RAG on many real-world tasks. This raises a critical question: Is GraphRAG really effective, and in which scenarios do graph structures provide measurable benefits for RAG systems? To address this, we propose GraphRAG-Bench, a comprehensive benchmark designed to evaluate GraphRAG models onboth hierarchical knowledge retrieval and deep contextual reasoning. GraphRAG-Bench features a comprehensive dataset with tasks of increasing difficulty, coveringfact retrieval, complex reasoning, contextual summarization, and creative generation, and a systematic evaluation across the entire pipeline, from graph constructionand knowledge retrieval to final generation. Leveraging this novel benchmark, we systematically investigate the conditions when GraphRAG surpasses traditional RAG and the underlying reasons for its success, offering guidelines for its practical application. All related resources and analyses are collected for the community at https://github.com/GraphRAG-Bench/GraphRAG-Benchmark.

  • 7 authors
·
Jun 5, 2025

When Heterophily Meets Heterogeneity: New Graph Benchmarks and Effective Methods

Many real-world graphs frequently present challenges for graph learning due to the presence of both heterophily and heterogeneity. However, existing benchmarks for graph learning often focus on heterogeneous graphs with homophily or homogeneous graphs with heterophily, leaving a gap in understanding how methods perform on graphs that are both heterogeneous and heterophilic. To bridge this gap, we introduce H2GB, a novel graph benchmark that brings together the complexities of both the heterophily and heterogeneity properties of graphs. Our benchmark encompasses 9 diverse real-world datasets across 5 domains, 28 baseline model implementations, and 26 benchmark results. In addition, we present a modular graph transformer framework UnifiedGT and a new model variant, H2G-former, that excels at this challenging benchmark. By integrating masked label embeddings, cross-type heterogeneous attention, and type-specific FFNs, H2G-former effectively tackles graph heterophily and heterogeneity. Extensive experiments across 26 baselines on H2GB reveal inadequacies of current models on heterogeneous heterophilic graph learning, and demonstrate the superiority of our H2G-former over existing solutions. Both the benchmark and the framework are available on GitHub (https://github.com/junhongmit/H2GB) and PyPI (https://pypi.org/project/H2GB), and documentation can be found at https://junhongmit.github.io/H2GB/.

  • 6 authors
·
Jul 15, 2024

4DBInfer: A 4D Benchmarking Toolbox for Graph-Centric Predictive Modeling on Relational DBs

Although RDBs store vast amounts of rich, informative data spread across interconnected tables, the progress of predictive machine learning models as applied to such tasks arguably falls well behind advances in other domains such as computer vision or natural language processing. This deficit stems, at least in part, from the lack of established/public RDB benchmarks as needed for training and evaluation purposes. As a result, related model development thus far often defaults to tabular approaches trained on ubiquitous single-table benchmarks, or on the relational side, graph-based alternatives such as GNNs applied to a completely different set of graph datasets devoid of tabular characteristics. To more precisely target RDBs lying at the nexus of these two complementary regimes, we explore a broad class of baseline models predicated on: (i) converting multi-table datasets into graphs using various strategies equipped with efficient subsampling, while preserving tabular characteristics; and (ii) trainable models with well-matched inductive biases that output predictions based on these input subgraphs. Then, to address the dearth of suitable public benchmarks and reduce siloed comparisons, we assemble a diverse collection of (i) large-scale RDB datasets and (ii) coincident predictive tasks. From a delivery standpoint, we operationalize the above four dimensions (4D) of exploration within a unified, scalable open-source toolbox called 4DBInfer. We conclude by presenting evaluations using 4DBInfer, the results of which highlight the importance of considering each such dimension in the design of RDB predictive models, as well as the limitations of more naive approaches such as simply joining adjacent tables. Our source code is released at https://github.com/awslabs/multi-table-benchmark .

  • 20 authors
·
Apr 27, 2024

NeurIPS 2025 E2LM Competition : Early Training Evaluation of Language Models

Existing benchmarks have proven effective for assessing the performance of fully trained large language models. However, we find striking differences in the early training stages of small models, where benchmarks often fail to provide meaningful or discriminative signals. To explore how these differences arise, this competition tackles the challenge of designing scientific knowledge evaluation tasks specifically tailored for measuring early training progress of language models. Participants are invited to develop novel evaluation methodologies or adapt existing benchmarks to better capture performance differences among language models. To support this effort, we provide three pre-trained small models (0.5B, 1B, and 3B parameters), along with intermediate checkpoints sampled during training up to 200B tokens. All experiments and development work can be run on widely available free cloud-based GPU platforms, making participation accessible to researchers with limited computational resources. Submissions will be evaluated based on three criteria: the quality of the performance signal they produce, the consistency of model rankings at 1 trillion tokens of training, and their relevance to the scientific knowledge domain. By promoting the design of tailored evaluation strategies for early training, this competition aims to attract a broad range of participants from various disciplines, including those who may not be machine learning experts or have access to dedicated GPU resources. Ultimately, this initiative seeks to make foundational LLM research more systematic and benchmark-informed from the earliest phases of model development.

  • 15 authors
·
Jun 9, 2025

RLM-on-KG: Heuristics First, LLMs When Needed: Adaptive Retrieval Control over Mention Graphs for Scattered Evidence

When does an LLM controller outperform rule-based traversal for knowledge graph exploration? We study this question through RLM-on-KG, a retrieval system that treats an LLM as an autonomous navigator over an RDF-encoded mention graph for grounded question answering. Unlike GraphRAG pipelines that rely on offline LLM indexing, RLM-on-KG performs entity-first, multi-hop exploration at query time using deterministic graph construction and a fixed tool set. Our central finding is a conditional advantage: the value of LLM control depends on evidence scatter and tool-calling sophistication. The paper's core claim is LLM control versus heuristic traversal, not a generic win over GraphRAG. On GraphRAG-Bench Novel (519 questions), Gemini 2.0 Flash achieves +2.47 pp F1 over a rule-based heuristic baseline (p < 0.0001), but only +0.16 pp over a GraphRAG-local variant (not significant). With a stronger controller, Claude Haiku 4.5, the gain over heuristic grows to +4.37 pp (p < 0.001) and extends to a +2.42 pp significant improvement over GraphRAG-local (p < 0.001). The gain is largest when gold evidence is scattered across 6-10 chunks (+3.21 pp) and smallest for concentrated evidence (+1.85 pp). Cross-scale validation on MuSiQue confirms that the LLM-over-heuristic advantage transfers, with expected attenuation on smaller per-question graphs. The core architectural insight is the separation of candidate discovery from ranking: the LLM adds value through exploration breadth, while final evidence selection is best handled by pure vector re-ranking. Beyond retrieval, exploration traces provide a proposed stress-test harness for structured data quality, yielding diagnostics for coverage, connectivity, provenance, and queryability.

  • 2 authors
·
Apr 17

QEDBENCH: Quantifying the Alignment Gap in Automated Evaluation of University-Level Mathematical Proofs

As Large Language Models (LLMs) saturate elementary benchmarks, the research frontier has shifted from generation to the reliability of automated evaluation. We demonstrate that standard "LLM-as-a-Judge" protocols suffer from a systematic Alignment Gap when applied to upper-undergraduate to early graduate level mathematics. To quantify this, we introduce QEDBench, the first large-scale dual-rubric alignment benchmark to systematically measure alignment with human experts on university-level math proofs by contrasting course-specific rubrics against expert common knowledge criteria. By deploying a dual-evaluation matrix (7 judges x 5 solvers) against 1,000+ hours of human evaluation, we reveal that certain frontier evaluators like Claude Opus 4.5, DeepSeek-V3, Qwen 2.5 Max, and Llama 4 Maverick exhibit significant positive bias (up to +0.18, +0.20, +0.30, +0.36 mean score inflation, respectively). Furthermore, we uncover a critical reasoning gap in the discrete domain: while Gemini 3.0 Pro achieves state-of-the-art performance (0.91 average human evaluation score), other reasoning models like GPT-5 Pro and Claude Sonnet 4.5 see their performance significantly degrade in discrete domains. Specifically, their average human evaluation scores drop to 0.72 and 0.63 in Discrete Math, and to 0.74 and 0.50 in Graph Theory. In addition to these research results, we also release QEDBench as a public benchmark for evaluating and improving AI judges. Our benchmark is publicly published at https://github.com/qqliu/Yale-QEDBench.

A Topological Perspective on Demystifying GNN-Based Link Prediction Performance

Graph Neural Networks (GNNs) have shown great promise in learning node embeddings for link prediction (LP). While numerous studies aim to improve the overall LP performance of GNNs, none have explored its varying performance across different nodes and its underlying reasons. To this end, we aim to demystify which nodes will perform better from the perspective of their local topology. Despite the widespread belief that low-degree nodes exhibit poorer LP performance, our empirical findings provide nuances to this viewpoint and prompt us to propose a better metric, Topological Concentration (TC), based on the intersection of the local subgraph of each node with the ones of its neighbors. We empirically demonstrate that TC has a higher correlation with LP performance than other node-level topological metrics like degree and subgraph density, offering a better way to identify low-performing nodes than using cold-start. With TC, we discover a novel topological distribution shift issue in which newly joined neighbors of a node tend to become less interactive with that node's existing neighbors, compromising the generalizability of node embeddings for LP at testing time. To make the computation of TC scalable, We further propose Approximated Topological Concentration (ATC) and theoretically/empirically justify its efficacy in approximating TC and reducing the computation complexity. Given the positive correlation between node TC and its LP performance, we explore the potential of boosting LP performance via enhancing TC by re-weighting edges in the message-passing and discuss its effectiveness with limitations. Our code is publicly available at https://github.com/YuWVandy/Topo_LP_GNN.

  • 7 authors
·
Oct 6, 2023

Reasoning Language Model Inference Serving Unveiled: An Empirical Study

The reasoning large language model (RLLM) has been proven competitive in solving complex reasoning tasks such as mathematics, coding, compared to general LLM. However, the serving performance and behavior of RLLM remains unexplored, which may undermine the deployment and utilization of RLLM in real-world scenario. To close this gap, in this paper, we conduct a comprehensive study of RLLM service. We first perform a pilot study on comparing the serving performance between RLLM and traditional LLM and reveal that there are several distinct differences regarding serving behavior: (1) significant memory usage and fluctuations; (2) straggler requests; (3) adaptive running time; (4) domain preference. Then we further investigate whether existing inference optimization techniques are valid for RLLM. Our main takeaways are that model quantization methods and speculative decoding can improve service system efficiency with small compromise to RLLM accuracy, while prefix caching, KV cache quantization may even degrade accuracy or serving performance for small RLLM. Lastly, we conduct evaluation under real world workload modeled by Gamma distribution to verify our findings. Empirical results of real world workload evaluation across different dataset are aligned with our main findings regarding RLLM serving. We hope our work can provide the research community and industry with insights to advance RLLM inference serving.

  • 9 authors
·
Oct 21, 2025 1

MMLongBench: Benchmarking Long-Context Vision-Language Models Effectively and Thoroughly

The rapid extension of context windows in large vision-language models has given rise to long-context vision-language models (LCVLMs), which are capable of handling hundreds of images with interleaved text tokens in a single forward pass. In this work, we introduce MMLongBench, the first benchmark covering a diverse set of long-context vision-language tasks, to evaluate LCVLMs effectively and thoroughly. MMLongBench is composed of 13,331 examples spanning five different categories of downstream tasks, such as Visual RAG and Many-Shot ICL. It also provides broad coverage of image types, including various natural and synthetic images. To assess the robustness of the models to different input lengths, all examples are delivered at five standardized input lengths (8K-128K tokens) via a cross-modal tokenization scheme that combines vision patches and text tokens. Through a thorough benchmarking of 46 closed-source and open-source LCVLMs, we provide a comprehensive analysis of the current models' vision-language long-context ability. Our results show that: i) performance on a single task is a weak proxy for overall long-context capability; ii) both closed-source and open-source models face challenges in long-context vision-language tasks, indicating substantial room for future improvement; iii) models with stronger reasoning ability tend to exhibit better long-context performance. By offering wide task coverage, various image types, and rigorous length control, MMLongBench provides the missing foundation for diagnosing and advancing the next generation of LCVLMs.

  • 12 authors
·
May 15, 2025 3

ChaosBench: A Multi-Channel, Physics-Based Benchmark for Subseasonal-to-Seasonal Climate Prediction

Accurate prediction of climate in the subseasonal-to-seasonal scale is crucial for disaster readiness, reduced economic risk, and improved policy-making amidst climate change. Yet, S2S prediction remains challenging due to the chaotic nature of the system. At present, existing benchmarks for weather and climate applications, tend to (1) have shorter forecasting range of up-to 14 days, (2) do not include a wide range of operational baseline forecasts, and (3) lack physics-based constraints for explainability. Thus, we propose ChaosBench, a large-scale, multi-channel, physics-based benchmark for S2S prediction. ChaosBench has over 460K frames of real-world observations and simulations, each with 60 variable-channels and spanning for up-to 45 years. We also propose several physics-based, in addition to vision-based metrics, that enables for a more physically-consistent model. Furthermore, we include a diverse set of physics-based forecasts from 4 national weather agencies as baselines to our data-driven counterpart. We establish two tasks that vary in complexity: full and sparse dynamics prediction. Our benchmark is one of the first to perform large-scale evaluation on existing models including PanguWeather, FourCastNetV2, GraphCast, and ClimaX, and finds methods originally developed for weather-scale applications fails on S2S task. We release our benchmark code and datasets at https://leap-stc.github.io/ChaosBench.

  • 7 authors
·
Feb 1, 2024

L-Eval: Instituting Standardized Evaluation for Long Context Language Models

Recently, there has been growing interest in extending the context length of instruction-following models in order to effectively process single-turn long input (e.g. summarizing a paper) and conversations with more extensive histories. While proprietary models such as GPT-4 and Claude have demonstrated considerable advancements in handling tens of thousands of tokens of context, open-sourced models are still in the early stages of experimentation. It also remains unclear whether developing these long context models can offer substantial gains on practical downstream tasks over retrieval-based methods or models simply trained on chunked contexts. To address this challenge, we propose to institute standardized evaluation for long context language models. Concretely, we develop L-Eval which contains 411 long documents and over 2,000 query-response pairs manually annotated and checked by the authors encompassing areas such as law, finance, school lectures, lengthy conversations, news, long-form novels, and meetings. L-Eval also adopts diverse evaluation methods and instruction styles, enabling a more reliable assessment of Long Context Language Models (LCLMs). Our findings indicate that while open-source models typically lag behind their commercial counterparts, they still exhibit impressive performance. LLaMA2 achieves the best results (win 45\% vs turbo-16k) on open-ended tasks with only 4k context length and ChatGLM2 achieves the best results on closed-ended tasks with 8k input tokens. We release our new evaluation suite, code, and all generation results including predictions from all open-sourced LCLMs, GPT4-32k, Cluade-100k at {https://github.com/OpenLMLab/LEval}.

  • 7 authors
·
Jul 20, 2023

Let's (not) just put things in Context: Test-Time Training for Long-Context LLMs

Progress on training and architecture strategies has enabled LLMs with millions of tokens in context length. However, empirical evidence suggests that such long-context LLMs can consume far more text than they can reliably use. On the other hand, it has been shown that inference-time compute can be used to scale performance of LLMs, often by generating thinking tokens, on challenging tasks involving multi-step reasoning. Through controlled experiments on sandbox long-context tasks, we find that such inference-time strategies show rapidly diminishing returns and fail at long context. We attribute these failures to score dilution, a phenomenon inherent to static self-attention. Further, we show that current inference-time strategies cannot retrieve relevant long-context signals under certain conditions. We propose a simple method that, through targeted gradient updates on the given context, provably overcomes limitations of static self-attention. We find that this shift in how inference-time compute is spent leads to consistently large performance improvements across models and long-context benchmarks. Our method leads to large 12.6 and 14.1 percentage point improvements for Qwen3-4B on average across subsets of LongBench-v2 and ZeroScrolls benchmarks. The takeaway is practical: for long context, a small amount of context-specific training is a better use of inference compute than current inference-time scaling strategies like producing more thinking tokens.

  • 11 authors
·
Dec 15, 2025

Dissecting the Runtime Performance of the Training, Fine-tuning, and Inference of Large Language Models

Large Language Models (LLMs) have seen great advance in both academia and industry, and their popularity results in numerous open-source frameworks and techniques in accelerating LLM pre-training, fine-tuning, and inference. Training and deploying LLMs are expensive as it requires considerable computing resources and memory, hence many efficient approaches have been developed for improving system pipelines as well as operators. However, the runtime performance can vary significantly across hardware and software stacks, which makes it difficult to choose the best configuration. In this work, we aim to benchmark the performance from both macro and micro perspectives. First, we benchmark the end-to-end performance of pre-training, fine-tuning, and serving LLMs in different sizes , i.e., 7, 13, and 70 billion parameters (7B, 13B, and 70B) on three 8-GPU platforms with and without individual optimization techniques, including ZeRO, quantization, recomputation, FlashAttention. Then, we dive deeper to provide a detailed runtime analysis of the sub-modules, including computing and communication operators in LLMs. For end users, our benchmark and findings help better understand different optimization techniques, training and inference frameworks, together with hardware platforms in choosing configurations for deploying LLMs. For researchers, our in-depth module-wise analyses discover potential opportunities for future work to further optimize the runtime performance of LLMs.

  • 11 authors
·
Nov 6, 2023

RTV-Bench: Benchmarking MLLM Continuous Perception, Understanding and Reasoning through Real-Time Video

Multimodal Large Language Models (MLLMs) increasingly excel at perception, understanding, and reasoning. However, current benchmarks inadequately evaluate their ability to perform these tasks continuously in dynamic, real-world environments. To bridge this gap, we introduce RTV-Bench, a fine-grained benchmark for MLLM real-time video analysis. RTV-Bench uses three key principles: (1) Multi-Timestamp Question Answering (MTQA), where answers evolve with scene changes; (2) Hierarchical Question Structure, combining basic and advanced queries; and (3) Multi-dimensional Evaluation, assessing the ability of continuous perception, understanding, and reasoning. RTV-Bench contains 552 diverse videos (167.2 hours) and 4,631 high-quality QA pairs. We evaluated leading MLLMs, including proprietary (GPT-4o, Gemini 2.0), open-source offline (Qwen2.5-VL, VideoLLaMA3), and open-source real-time (VITA-1.5, InternLM-XComposer2.5-OmniLive) models. Experiment results show open-source real-time models largely outperform offline ones but still trail top proprietary models. Our analysis also reveals that larger model size or higher frame sampling rates do not significantly boost RTV-Bench performance, sometimes causing slight decreases. This underscores the need for better model architectures optimized for video stream processing and long sequences to advance real-time video analysis with MLLMs. Our benchmark toolkit is available at: https://github.com/LJungang/RTV-Bench.

  • 14 authors
·
May 4, 2025