Jiaxuan You

Kaidi Cao, Jiaxuan You, Jure Leskovec · stanford

A key assumption in multi-task learning is that at the inference time the multi-task model only has access to a given data point but not to the data point's labels from other tasks. This presents an opportunity to extend multi-task learning to utilize data point's labels from other auxiliary tasks, and this way improves performance on the new task. Here we introduce a novel relational multi-task learning setting where we leverage data point labels from auxiliary tasks to make more accurate predictions on the new task. We develop MetaLink, where our key innovation is to build a knowledge graph that connects data points and tasks and thus allows us to leverage labels from auxiliary tasks. The knowledge graph consists of two types of nodes: (1) data nodes, where node features are data embeddings computed by the neural network, and (2) task nodes, with the last layer's weights for each task as node features. The edges in this knowledge graph capture data-task relationships, and the edge label captures the label of a data point on a particular task. Under MetaLink, we reformulate the new task as a link label prediction problem between a data node and a task node. The MetaLink framework provides flexibility to model knowledge transfer from auxiliary task labels to the task of interest. We evaluate MetaLink on 6 benchmark datasets in both biochemical and vision domains. Experiments demonstrate that MetaLink can successfully utilize the relations among different tasks, outperforming the state-of-the-art methods under the proposed relational multi-task learning setting, with up to 27% improvement in ROC AUC.

Yue Yu, Wei Ping, Zihan Liu et al.

Large language models (LLMs) typically utilize the top-k contexts from a retriever in retrieval-augmented generation (RAG). In this work, we propose a novel instruction fine-tuning framework RankRAG, which instruction-tunes a single LLM for the dual purpose of context ranking and answer generation in RAG. In particular, the instruction-tuned LLMs work surprisingly well by adding a small fraction of ranking data into the training blend, and outperform existing expert ranking models, including the same LLM exclusively fine-tuned on a large amount of ranking data. For generation, we compare our model with many strong baselines, including GPT-4-0613, GPT-4-turbo-2024-0409, and ChatQA-1.5, an open-sourced model with the state-of-the-art performance on RAG benchmarks. Specifically, our Llama3-RankRAG significantly outperforms Llama3-ChatQA-1.5 and GPT-4 models on nine knowledge-intensive benchmarks. In addition, it also performs comparably to GPT-4 on five RAG benchmarks in the biomedical domain without instruction fine-tuning on biomedical data, demonstrating its superb capability for generalization to new domains.

Kaidi Cao, Jiaxuan You, Jiaju Liu et al. · stanford

AutoML has demonstrated remarkable success in finding an effective neural architecture for a given machine learning task defined by a specific dataset and an evaluation metric. However, most present AutoML techniques consider each task independently from scratch, which requires exploring many architectures, leading to high computational cost. Here we propose AutoTransfer, an AutoML solution that improves search efficiency by transferring the prior architectural design knowledge to the novel task of interest. Our key innovation includes a task-model bank that captures the model performance over a diverse set of GNN architectures and tasks, and a computationally efficient task embedding that can accurately measure the similarity among different tasks. Based on the task-model bank and the task embeddings, we estimate the design priors of desirable models of the novel task, by aggregating a similarity-weighted sum of the top-K design distributions on tasks that are similar to the task of interest. The computed design priors can be used with any AutoML search algorithm. We evaluate AutoTransfer on six datasets in the graph machine learning domain. Experiments demonstrate that (i) our proposed task embedding can be computed efficiently, and that tasks with similar embeddings have similar best-performing architectures; (ii) AutoTransfer significantly improves search efficiency with the transferred design priors, reducing the number of explored architectures by an order of magnitude. Finally, we release GNN-Bank-101, a large-scale dataset of detailed GNN training information of 120,000 task-model combinations to facilitate and inspire future research.

Jiaxuan You, Tianyu Du, Jure Leskovec

Graph Neural Networks (GNNs) have been successfully applied to many real-world static graphs. However, the success of static graphs has not fully translated to dynamic graphs due to the limitations in model design, evaluation settings, and training strategies. Concretely, existing dynamic GNNs do not incorporate state-of-the-art designs from static GNNs, which limits their performance. Current evaluation settings for dynamic GNNs do not fully reflect the evolving nature of dynamic graphs. Finally, commonly used training methods for dynamic GNNs are not scalable. Here we propose ROLAND, an effective graph representation learning framework for real-world dynamic graphs. At its core, the ROLAND framework can help researchers easily repurpose any static GNN to dynamic graphs. Our insight is to view the node embeddings at different GNN layers as hierarchical node states and then recurrently update them over time. We then introduce a live-update evaluation setting for dynamic graphs that mimics real-world use cases, where GNNs are making predictions and being updated on a rolling basis. Finally, we propose a scalable and efficient training approach for dynamic GNNs via incremental training and meta-learning. We conduct experiments over eight different dynamic graph datasets on future link prediction tasks. Models built using the ROLAND framework achieve on average 62.7% relative mean reciprocal rank (MRR) improvement over state-of-the-art baselines under the standard evaluation settings on three datasets. We find state-of-the-art baselines experience out-of-memory errors for larger datasets, while ROLAND can easily scale to dynamic graphs with 56 million edges. After re-implementing these baselines using the ROLAND training strategy, ROLAND models still achieve on average 15.5% relative MRR improvement over the baselines.

Shirley Wu, Jiaxuan You, Jure Leskovec et al.

Despite the success of automated machine learning (AutoML), which aims to find the best design, including the architecture of deep networks and hyper-parameters, conventional AutoML methods are computationally expensive and hardly provide insights into the relations of different model design choices. To tackle the challenges, we propose FALCON, an efficient sample-based method to search for the optimal model design. Our key insight is to model the design space of possible model designs as a design graph, where the nodes represent design choices, and the edges denote design similarities. FALCON features 1) a task-agnostic module, which performs message passing on the design graph via a Graph Neural Network (GNN), and 2) a task-specific module, which conducts label propagation of the known model performance information on the design graph. Both modules are combined to predict the design performances in the design space, navigating the search direction. We conduct extensive experiments on 27 node and graph classification tasks from various application domains, and an image classification task on the CIFAR-10 dataset. We empirically show that FALCON can efficiently obtain the well-performing designs for each task using only 30 explored nodes. Specifically, FALCON has a comparable time cost with the one-shot approaches while achieving an average improvement of 3.3% compared with the best baselines.

Yanru Qu, Yijie Zhang, Wenjuan Tan et al.

Accurate molecular representations are critical for drug discovery, and a central challenge lies in capturing the chemical environment of molecular fragments, as key interactions, such as H-bond and π stacking, occur only under specific local conditions. Most existing approaches represent molecules as atom-level graphs; however, atom-level representations can hardly express higher-order chemical context (e.g., stereochemistry, lone pairs, conjugation). Fragment-based methods (e.g., principal subgraph, predefined functional groups) fail to preserve essential information such as chirality, aromaticity, and ionic states. This work addresses these limitations from two aspects. (i) OverlapBPE tokenization. We propose a novel data-driven molecule tokenization method. Unlike existing approaches, our method allows overlapping fragments, reflecting the inherently fuzzy boundaries of small-molecule substructures and, together with enriched chemical information at the token level, thereby preserving a more complete chemical context. (ii) h-MINT model. OverlapBPE induces many-to-many atom-fragment mappings, which necessitate a new hierarchical architecture. We therefore develop a hierarchical molecular interaction network capable of jointly modeling interactions at both atom and fragment levels. By supporting fragment overlaps, the model naturally accommodates the many-to-many atom-fragment mappings introduced by the OverlapBPE scheme. Extensive evaluation against state-of-the-art methods shows our method improves binding affinity prediction by 2-4% Pearson/Spearman correlation on PDBBind and LBA, enhances virtual screening by 1-3% in key metrics on DUD-E and LIT-PCBA, and achieves the best overall HTS performance on PubChem assays. Further analysis demonstrates that our method effectively captures interactive information while maintaining good generalization.

Zijie Lei, Tao Feng, Zhigang Hua et al.

Large language models have recently shown promise for multimodal recommendation, particularly with text and image inputs. Yet real-world recommendation signals extend far beyond these modalities. To reflect this, we formalize recommendation features into four modalities: text, images, categorical features, and numerical attributes, and highlight the unique challenges this heterogeneity poses for LLMs in understanding multimodal information. In particular, these challenges arise not only across modalities but also within them, as attributes such as price, rating, and time may all be numeric yet carry distinct semantic meanings. Beyond this intra-modality ambiguity, another major challenge is the nested structure of recommendation signals, where user histories are sequences of items, each associated with multiple attributes. To address these challenges, we propose UniRec, a unified multimodal encoder for LLM-based recommendation. UniRec first employs modality-specific encoders to produce consistent embeddings across heterogeneous signals. It then adopts a triplet representation, comprising attribute name, type, and value, to separate schema from raw inputs and preserve semantic distinctions. Finally, a hierarchical Q-Former models the nested structure of user interactions while maintaining their layered organization. Across multiple real-world benchmarks, UniRec outperforms state-of-the-art multimodal and LLM-based recommenders by up to 15%, and extensive ablation studies further validate the contributions of each component.

Zizhao Zhang, Yi Yang, Lutong Zou et al.

Benefiting from high-quality datasets and standardized evaluation metrics, machine learning (ML) has achieved sustained progress and widespread applications. However, while applying machine learning to relational databases (RDBs), the absence of a well-established benchmark remains a significant obstacle to the development of ML. To address this issue, we introduce ML Benchmark For Relational Databases (RDBench), a standardized benchmark that aims to promote reproducible ML research on RDBs that include multiple tables. RDBench offers diverse RDB datasets of varying scales, domains, and relational structures, organized into 4 levels. Notably, to simplify the adoption of RDBench for diverse ML domains, for any given database, RDBench exposes three types of interfaces including tabular data, homogeneous graphs, and heterogeneous graphs, sharing the same underlying task definition. For the first time, RDBench enables meaningful comparisons between ML methods from diverse domains, ranging from XGBoost to Graph Neural Networks, under RDB prediction tasks. We design multiple classification and regression tasks for each RDB dataset and report averaged results over the same dataset, further enhancing the robustness of the experimental findings. RDBench is implemented with DBGym, a user-friendly platform for ML research and application on databases, enabling benchmarking new ML methods with RDBench at ease.

Pengrui Han, Peiyang Song, Haofei Yu et al.

Recent advancements in artificial intelligence have led to the creation of highly capable large language models (LLMs) that can perform tasks in a human-like manner. However, LLMs exhibit only infant-level cognitive abilities in certain areas. One such area is the A-Not-B error, a phenomenon seen in infants where they repeat a previously rewarded behavior despite well-observed changed conditions. This highlights their lack of inhibitory control -- the ability to stop a habitual or impulsive response. In our work, we design a text-based multi-choice QA scenario similar to the A-Not-B experimental settings to systematically test the inhibitory control abilities of LLMs. We found that state-of-the-art LLMs (like Llama3-8b) perform consistently well with in-context learning (ICL) but make errors and show a significant drop of as many as 83.3% in reasoning tasks when the context changes trivially. This suggests that LLMs only have inhibitory control abilities on par with human infants in this regard, often failing to suppress the previously established response pattern during ICL.

Lecheng Zheng, Baoyu Jing, Zihao Li et al.

Graph Self-Supervised Learning (SSL) has emerged as a pivotal area of research in recent years. By engaging in pretext tasks to learn the intricate topological structures and properties of graphs using unlabeled data, these graph SSL models achieve enhanced performance, improved generalization, and heightened robustness. Despite the remarkable achievements of these graph SSL methods, their current implementation poses significant challenges for beginners and practitioners due to the complex nature of graph structures, inconsistent evaluation metrics, and concerns regarding reproducibility hinder further progress in this field. Recognizing the growing interest within the research community, there is an urgent need for a comprehensive, beginner-friendly, and accessible toolkit consisting of the most representative graph SSL algorithms. To address these challenges, we present a Graph SSL toolkit named PyG-SSL, which is built upon PyTorch and is compatible with various deep learning and scientific computing backends. Within the toolkit, we offer a unified framework encompassing dataset loading, hyper-parameter configuration, model training, and comprehensive performance evaluation for diverse downstream tasks. Moreover, we provide beginner-friendly tutorials and the best hyper-parameters of each graph SSL algorithm on different graph datasets, facilitating the reproduction of results. The GitHub repository of the library is https://github.com/iDEA-iSAIL-Lab-UIUC/pyg-ssl.

Jinwei Yao, Kaiqi Chen, Kexun Zhang et al.

Large language models (LLMs) are increasingly employed for complex tasks that process multiple generation calls in a tree structure with shared prefixes of tokens, including few-shot prompting, multi-step reasoning, speculative decoding, etc. However, existing inference systems for tree-based applications are inefficient due to improper partitioning of queries and KV cache during attention calculation. This leads to two main issues: (1) a lack of memory access (IO) reuse for KV cache of shared prefixes, and (2) poor load balancing.As a result, there is redundant KV cache IO between GPU global memory and shared memory, along with low GPU utilization. To address these challenges, we propose DeFT(Decoding with Flash Tree-Attention), a hardware-efficient attention algorithm with prefix-aware and load-balanced KV cache partitions. DeFT reduces the number of read/write operations of KV cache during attention calculation through KV-Guided Grouping, a method that avoids repeatedly loading KV cache of shared prefixes in attention computation. Additionally, we propose Flattened Tree KV Splitting, a mechanism that ensures even distribution of the KV cache across partitions with little computation redundancy, enhancing GPU utilization during attention computations. By reducing 73-99% KV cache IO and nearly 100% IO for partial results during attention calculation, DeFT achieves up to 2.23/3.59x speedup in the end-to-end/attention latency across three practical tree-based workloads compared to state-of-the-art attention algorithms. Our code is available at https://github.com/LINs-lab/DeFT.

Chi-Chih Chang, Siqi Zhu, Zhichen Zeng et al.

We present Speculative Rollout with Tree-Structured Cache (SRT), a simple, model-free approach to accelerate on-policy reinforcement learning (RL) for language models without sacrificing distributional correctness. SRT exploits the empirical similarity of rollouts for the same prompt across training steps by storing previously generated continuations in a per-prompt tree-structured cache. During generation, the current policy uses this tree as the draft model for performing speculative decoding. To keep the cache fresh and improve draft model quality, SRT updates trees online from ongoing rollouts and proactively performs run-ahead generation during idle GPU bubbles. Integrated into standard RL pipelines (\textit{e.g.}, PPO, GRPO and DAPO) and multi-turn settings, SRT consistently reduces generation and step latency and lowers per-token inference cost, achieving up to 2.08x wall-clock time speedup during rollout.

Peixuan Han, Zijia Liu, Jiaxuan You

Large language models (LLMs) have shown promising potential in persuasion, but existing works on training LLM persuaders are still preliminary. Notably, while humans are skilled in modeling their opponent's thoughts and opinions proactively and dynamically, current LLMs struggle with such Theory of Mind (ToM) reasoning, resulting in limited diversity and opponent awareness. To address this limitation, we introduce Theory of Mind Augmented Persuader (ToMAP), a novel approach for building more flexible persuader agents by incorporating two theory of mind modules that enhance the persuader's awareness and analysis of the opponent's mental state. Specifically, we begin by prompting the persuader to consider possible objections to the target central claim, and then use a text encoder paired with a trained MLP classifier to predict the opponent's current stance on these counterclaims. Our carefully designed reinforcement learning schema enables the persuader learns how to analyze opponent-related information and utilize it to generate more effective arguments. Experiments show that the ToMAP persuader, while containing only 3B parameters, outperforms much larger baselines, like GPT-4o, with a relative gain of 39.4% across multiple persuadee models and diverse corpora. Notably, ToMAP exhibits complex reasoning chains and reduced repetition during training, which leads to more diverse and effective arguments. The opponent-aware feature of ToMAP also makes it suitable for long conversations and enables it to employ more logical and opponent-aware strategies. These results underscore our method's effectiveness and highlight its potential for developing more persuasive language agents. Code is available at: https://github.com/ulab-uiuc/ToMAP.

Haozhen Zhang, Tao Feng, Pengrui Han et al.

Large Language Models (LLMs) have recently achieved remarkable performance in long-context understanding. However, current long-context LLM benchmarks are limited by rigid context length, labor-intensive annotation, and the pressing challenge of label leakage issues during LLM training. Therefore, we propose \textsc{AcademicEval}, a live benchmark for evaluating LLMs over long-context generation tasks. \textsc{AcademicEval} adopts papers on arXiv to introduce several academic writing tasks with long-context inputs, \textit{i.e.}, \textsc{Title}, \textsc{Abstract}, \textsc{Introduction}, and \textsc{Related Work}, which cover a wide range of abstraction levels and require no manual labeling. Moreover, \textsc{AcademicEval} integrates high-quality and expert-curated few-shot demonstrations from a collected co-author graph to enable flexible context length. Especially, \textsc{AcademicEval} features an efficient live evaluation, ensuring no label leakage. We conduct a holistic evaluation on \textsc{AcademicEval}, and the results illustrate that LLMs perform poorly on tasks with hierarchical abstraction levels and tend to struggle with long few-shot demonstrations, highlighting the challenge of our benchmark. Through experimental analysis, we also reveal some insights for enhancing LLMs' long-context modeling capabilities. Code is available at https://github.com/ulab-uiuc/AcademicEval

Zhaochen Hong, Haofei Yu, Jiaxuan You

Evaluating consistency in large language models (LLMs) is crucial for ensuring reliability, particularly in complex, multi-step interactions between humans and LLMs. Traditional self-consistency methods often miss subtle semantic changes in natural language and functional shifts in code or equations, which can accumulate over multiple transformations. To address this, we propose ConsistencyChecker, a tree-based evaluation framework designed to measure consistency through sequences of reversible transformations, including machine translation tasks and AI-assisted programming tasks. In our framework, nodes represent distinct text states, while edges correspond to pairs of inverse operations. Dynamic and LLM-generated benchmarks ensure a fair assessment of the model's generalization ability and eliminate benchmark leakage. Consistency is quantified based on similarity across different depths of the transformation tree. Experiments on eight models from various families and sizes show that ConsistencyChecker can distinguish the performance of different models. Notably, our consistency scores-computed entirely without using WMT paired data-correlate strongly (r > 0.7) with WMT 2024 auto-ranking, demonstrating the validity of our benchmark-free approach. Our implementation is available at: https://github.com/ulab-uiuc/consistencychecker.

Chumeng Liang, Zhanyang Jin, Zahaib Akhtar et al.

Tabular log abstracts objects and events in the real-world system and reports their updates to reflect the change of the system, where one can detect real-world inconsistencies efficiently by debugging corresponding log entries. However, recent advances in processing text-enriched tabular log data overly depend on large language models (LLMs) and other heavy-load models, thus suffering from limited flexibility and scalability. This paper proposes a new framework, GraphLogDebugger, to debug tabular log based on dynamic graphs. By constructing heterogeneous nodes for objects and events and connecting node-wise edges, the framework recovers the system behind the tabular log as an evolving dynamic graph. With the help of our dynamic graph modeling, a simple dynamic Graph Neural Network (GNN) is representative enough to outperform LLMs in debugging tabular log, which is validated by experimental results on real-world log datasets of computer systems and academic papers.

Tao Feng, Haozhen Zhang, Zijie Lei et al.

The rapid advancement of large language models (LLMs) has created a diverse landscape of models, each excelling at different tasks. This diversity drives researchers to employ multiple LLMs in practice, leaving behind valuable multi-LLM log data. This naturally leads to the question of whether such logs can be fully leveraged to fuse LLMs' complementary capabilities. Although prior work has explored various strategies for integrating multiple LLMs, we argue that practical fusion must meet two essential requirements: (1) compatibility with real-world serving scenarios (e.g., local and API-based serving), and (2) flexibility to operate at different stages of the LLM pipeline to meet varied user needs (e.g., fine-tuning and inference stages). To this end, we introduce LLMFusionBench, a large-scale benchmark for LLM fusion that spans 14 tasks across five domains, with responses from 20 open-source LLMs (8B--671B) totaling 103M tokens. Building on LLMFusionBench, we propose FusionFactory, a systematic framework with three elaborated levels: (1) query-level fusion via tailored LLM routers, (2) thought-level fusion leveraging retrieved abstract reasoning templates, and (3) model-level fusion via distillation from top-ranked responses. Experiments show that FusionFactory consistently outperforms the best individual LLM across all 14 benchmarks, with the optimal fusion configuration varying across benchmarks, highlighting the promise of multi-LLM log data as a practical foundation for fusing diverse LLM capabilities.

Tao Feng, Yexin Wu, Guanyu Lin et al.

World models (WMs) demonstrate strong capabilities in prediction, generation, and planning tasks. Existing WMs primarily focus on unstructured data and cannot leverage the ubiquitous structured data, often represented as graphs, in the digital world. While multiple graph foundation models have been proposed, they focus on graph learning tasks and cannot extend to diverse multi-modal data and interdisciplinary tasks. To address these challenges, we propose the Graph World Model (GWM), a world model that supports both unstructured and graph-structured states with multi-modal information and represents diverse tasks as actions. The core of a GWM is a generic message-passing algorithm to aggregate structured information, either over a unified multi-modal token space by converting multi-modal data into text (GWM-T) or a unified multi-modal embedding space by modality-specific encoders (GWM-E). Notably, GWM introduces action nodes to support diverse tasks, where action nodes are linked to other nodes via direct reference or similarity computation. Extensive experiments on six tasks from diverse domains, including multi-modal generation and matching, recommendation, graph prediction, multi-agent, retrieval-augmented generation, and planning and optimization, show that the same GWM outperforms or matches domain-specific baselines' performance, benefits from multi-hop structures, and demonstrates strong zero-shot/few-shot capabilities on unseen new tasks. Our code for GWM is released at https://github.com/ulab-uiuc/GWM.

Bang Liu, Xinfeng Li, Jiayi Zhang et al. · microsoft-research

The advent of large language models (LLMs) has catalyzed a transformative shift in artificial intelligence, paving the way for advanced intelligent agents capable of sophisticated reasoning, robust perception, and versatile action across diverse domains. As these agents increasingly drive AI research and practical applications, their design, evaluation, and continuous improvement present intricate, multifaceted challenges. This book provides a comprehensive overview, framing intelligent agents within modular, brain-inspired architectures that integrate principles from cognitive science, neuroscience, and computational research. We structure our exploration into four interconnected parts. First, we systematically investigate the modular foundation of intelligent agents, systematically mapping their cognitive, perceptual, and operational modules onto analogous human brain functionalities and elucidating core components such as memory, world modeling, reward processing, goal, and emotion. Second, we discuss self-enhancement and adaptive evolution mechanisms, exploring how agents autonomously refine their capabilities, adapt to dynamic environments, and achieve continual learning through automated optimization paradigms. Third, we examine multi-agent systems, investigating the collective intelligence emerging from agent interactions, cooperation, and societal structures. Finally, we address the critical imperative of building safe and beneficial AI systems, emphasizing intrinsic and extrinsic security threats, ethical alignment, robustness, and practical mitigation strategies necessary for trustworthy real-world deployment. By synthesizing modular AI architectures with insights from different disciplines, this survey identifies key research challenges and opportunities, encouraging innovations that harmonize technological advancement with meaningful societal benefit.

Matthias Fey, Weihua Hu, Kexin Huang et al.

Much of the world's most valued data is stored in relational databases and data warehouses, where the data is organized into many tables connected by primary-foreign key relations. However, building machine learning models using this data is both challenging and time consuming. The core problem is that no machine learning method is capable of learning on multiple tables interconnected by primary-foreign key relations. Current methods can only learn from a single table, so the data must first be manually joined and aggregated into a single training table, the process known as feature engineering. Feature engineering is slow, error prone and leads to suboptimal models. Here we introduce an end-to-end deep representation learning approach to directly learn on data laid out across multiple tables. We name our approach Relational Deep Learning (RDL). The core idea is to view relational databases as a temporal, heterogeneous graph, with a node for each row in each table, and edges specified by primary-foreign key links. Message Passing Graph Neural Networks can then automatically learn across the graph to extract representations that leverage all input data, without any manual feature engineering. Relational Deep Learning leads to more accurate models that can be built much faster. To facilitate research in this area, we develop RelBench, a set of benchmark datasets and an implementation of Relational Deep Learning. The data covers a wide spectrum, from discussions on Stack Exchange to book reviews on the Amazon Product Catalog. Overall, we define a new research area that generalizes graph machine learning and broadens its applicability to a wide set of AI use cases.

Jupinder Parmar, Shrimai Prabhumoye, Joseph Jennings et al. · nvidia

We introduce Nemotron-4 15B, a 15-billion-parameter large multilingual language model trained on 8 trillion text tokens. Nemotron-4 15B demonstrates strong performance when assessed on English, multilingual, and coding tasks: it outperforms all existing similarly-sized open models on 4 out of 7 downstream evaluation areas and achieves competitive performance to the leading open models in the remaining ones. Specifically, Nemotron-4 15B exhibits the best multilingual capabilities of all similarly-sized models, even outperforming models over four times larger and those explicitly specialized for multilingual tasks.

Siqi Zhu, Jiaxuan You

We introduce OpenTinker, an infrastructure for reinforcement learning (RL) of large language model (LLM) agents built around a separation of concerns across algorithm design, execution, and agent-environment interaction. Rather than relying on monolithic, end-to-end RL pipelines, OpenTinker decomposes agentic learning systems into lightweight, composable components with clearly defined abstraction boundaries. Users specify agents, environments, and interaction protocols, while inference and training are delegated to a managed execution runtime. OpenTinker introduces a centralized scheduler for managing training and inference workloads, including LoRA-based and full-parameter RL, supervised fine-tuning, and inference, over shared resources. We further discuss design principles for extending OpenTinker to multi-agent training. Finally, we present a set of RL use cases that demonstrate the effectiveness of the framework in practical agentic learning scenarios.

Bo Adler, Niket Agarwal, Ashwath Aithal et al. · nvidia

We release the Nemotron-4 340B model family, including Nemotron-4-340B-Base, Nemotron-4-340B-Instruct, and Nemotron-4-340B-Reward. Our models are open access under the NVIDIA Open Model License Agreement, a permissive model license that allows distribution, modification, and use of the models and its outputs. These models perform competitively to open access models on a wide range of evaluation benchmarks, and were sized to fit on a single DGX H100 with 8 GPUs when deployed in FP8 precision. We believe that the community can benefit from these models in various research studies and commercial applications, especially for generating synthetic data to train smaller language models. Notably, over 98% of data used in our model alignment process is synthetically generated, showcasing the effectiveness of these models in generating synthetic data. To further support open research and facilitate model development, we are also open-sourcing the synthetic data generation pipeline used in our model alignment process.

Rex Ying, Tianyu Fu, Andrew Wang et al. · tsinghua

Identifying frequent subgraphs, also called network motifs, is crucial in analyzing and predicting properties of real-world networks. However, finding large commonly-occurring motifs remains a challenging problem not only due to its NP-hard subroutine of subgraph counting, but also the exponential growth of the number of possible subgraphs patterns. Here we present Subgraph Pattern Miner (SPMiner), a novel neural approach for approximately finding frequent subgraphs in a large target graph. SPMiner combines graph neural networks, order embedding space, and an efficient search strategy to identify network subgraph patterns that appear most frequently in the target graph. SPMiner first decomposes the target graph into many overlapping subgraphs and then encodes each subgraph into an order embedding space. SPMiner then uses a monotonic walk in the order embedding space to identify frequent motifs. Compared to existing approaches and possible neural alternatives, SPMiner is more accurate, faster, and more scalable. For 5- and 6-node motifs, we show that SPMiner can almost perfectly identify the most frequent motifs while being 100x faster than exact enumeration methods. In addition, SPMiner can also reliably identify frequent 10-node motifs, which is well beyond the size limit of exact enumeration approaches. And last, we show that SPMiner can find large up to 20 node motifs with 10-100x higher frequency than those found by current approximate methods.

Nimet Beyza Bozdag, Shuhaib Mehri, Xiaocheng Yang et al.

Persuasion is a fundamental aspect of communication, influencing decision-making across diverse contexts, from everyday conversations to high-stakes scenarios such as politics, marketing, and law. The rise of conversational AI systems has significantly expanded the scope of persuasion, introducing both opportunities and risks. AI-driven persuasion can be leveraged for beneficial applications, but also poses threats through manipulation and unethical influence. Moreover, AI systems are not only persuaders, but also susceptible to persuasion, making them vulnerable to adversarial attacks and bias reinforcement. Despite rapid advancements in AI-generated persuasive content, our understanding of what makes persuasion effective remains limited due to its inherently subjective and context-dependent nature. In this survey, we provide a comprehensive overview of computational persuasion, structured around three key perspectives: (1) AI as a Persuader, which explores AI-generated persuasive content and its applications; (2) AI as a Persuadee, which examines AI's susceptibility to influence and manipulation; and (3) AI as a Persuasion Judge, which analyzes AI's role in evaluating persuasive strategies, detecting manipulation, and ensuring ethical persuasion. We introduce a taxonomy for computational persuasion research and discuss key challenges, including evaluating persuasiveness, mitigating manipulative persuasion, and developing responsible AI-driven persuasive systems. Our survey outlines future research directions to enhance the safety, fairness, and effectiveness of AI-powered persuasion while addressing the risks posed by increasingly capable language models.

Ziqi Gao, Tao Feng, Jiaxuan You et al.

AlphaFold can be used for both single-chain and multi-chain protein structure prediction, while the latter becomes extremely challenging as the number of chains increases. In this work, by taking each chain as a node and assembly actions as edges, we show that an acyclic undirected connected graph can be used to predict the structure of multi-chain protein complexes (a.k.a., protein complex modelling, PCM). However, there are still two challenges: 1) The huge combinatorial optimization space of $N^{N-2}$ ($N$ is the number of chains) for the PCM problem can easily lead to high computational cost. 2) The scales of protein complexes exhibit distribution shift due to variance in chain numbers, which calls for the generalization in modelling complexes of various scales. To address these challenges, we propose GAPN, a Generative Adversarial Policy Network powered by domain-specific rewards and adversarial loss through policy gradient for automatic PCM prediction. Specifically, GAPN learns to efficiently search through the immense assembly space and optimize the direct docking reward through policy gradient. Importantly, we design an adversarial reward function to enhance the receptive field of our model. In this way, GAPN will simultaneously focus on a specific batch of complexes and the global assembly rules learned from complexes with varied chain numbers. Empirically, we have achieved both significant accuracy (measured by RMSD and TM-Score) and efficiency improvements compared to leading PCM softwares.

Haozhen Zhang, Tao Feng, Jiaxuan You

Retrieval-augmented generation (RAG) has revitalized Large Language Models (LLMs) by injecting non-parametric factual knowledge. Compared with long-context LLMs, RAG is considered an effective summarization tool in a more concise and lightweight manner, which can interact with LLMs multiple times using diverse queries to get comprehensive responses. However, the LLM-generated historical responses, which contain potentially insightful information, are largely neglected and discarded by existing approaches, leading to suboptimal results. In this paper, we propose $\textit{graph of records}$ ($\textbf{GoR}$), which leverages historical responses generated by LLMs to enhance RAG for long-context global summarization. Inspired by the $\textit{retrieve-then-generate}$ paradigm of RAG, we construct a graph by establishing an edge between the retrieved text chunks and the corresponding LLM-generated response. To further uncover the intricate correlations between them, GoR features a $\textit{graph neural network}$ and an elaborately designed $\textit{BERTScore}$-based objective for self-supervised model training, enabling seamless supervision signal backpropagation between reference summaries and node embeddings. We comprehensively compare GoR with 12 baselines across four long-context summarization datasets, and the results indicate that our proposed method reaches the best performance ($\textit{e.g.}$, 15%, 8%, and 19% improvement over retrievers w.r.t. Rouge-L, Rouge-1, and Rouge-2 on the WCEP dataset). Extensive experiments further demonstrate the effectiveness of GoR.

Zhenjie Sun, Naihao Deng, Haofei Yu et al.

Large language models' reasoning abilities benefit from methods that organize their thought processes, such as chain-of-thought prompting, which employs a sequential structure to guide the reasoning process step-by-step. However, existing approaches focus primarily on organizing the sequence of thoughts, leaving structure in individual thought steps underexplored. To address this gap, we propose Table as Thought, a framework inspired by cognitive neuroscience theories on human thought. Table as Thought organizes reasoning within a tabular schema, where rows represent sequential thought steps and columns capture critical constraints and contextual information to enhance reasoning. The reasoning process iteratively populates the table until self-verification ensures completeness and correctness. Our experiments show that Table as Thought excels in planning tasks and demonstrates a strong potential for enhancing LLM performance in mathematical reasoning compared to unstructured thought baselines. This work provides a novel exploration of refining thought representation within LLMs, paving the way for advancements in reasoning and AI cognition.

Peixuan Han, Adit Krishnan, Gerald Friedland et al.

Reinforcement learning with verifiable rewards has significantly advanced reasoning in large language models (LLMs), but such signals remain coarse, offering only binary correctness feedback. This limitation often results in inefficiencies, including overly verbose reasoning and high computational cost, while existing solutions often compromise accuracy. To address this, we introduce self-aligned reward (SAR), a self-guided signal that complements verifiable rewards to encourage both reasoning accuracy and efficiency. SAR is defined as the relative perplexity difference between an answer conditioned on the query and the standalone answer, thereby favoring responses that are concise and query-specific. Quantitative analysis reveals that SAR reliably distinguishes answer quality: concise, correct answers score higher than redundant ones, and partially correct answers score higher than entirely incorrect ones. Evaluation on 4 models across 7 benchmarks shows that integrating SAR with prevalent RL algorithms like PPO and GRPO improves accuracy by 4%, while reducing inference cost by 30%. Further analysis demonstrates that SAR achieves a Pareto-optimal trade-off between correctness and efficiency compared to reward signals based on length or self-confidence. We also show that SAR shortens responses while preserving advanced reasoning behaviors, demonstrating its ability to suppress unnecessary elaboration without losing critical reasoning. These results highlight the promise of self-aligned reward as a fine-grained complement to verifiable rewards, paving the way for more efficient and effective LLM training.

Zhongjie Dai, Tao Feng, Jiaxuan You

The growing number of Large Language Models (LLMs) with diverse capabilities and response styles provides users with a wider range of choices, which presents challenges in selecting appropriate LLMs, as user preferences vary in terms of performance, cost, and response style. Current LLM selection methods typically optimize for a single fixed objective, such as performance, cost, or a trade-off between them, and fail to learn individual user preferences from interaction data. To address these limitations, we propose PersonalizedRouter, a graph-based framework that models diverse user profiles and performs personalized LLM selection by leveraging interaction data that includes task context, queries, candidate LLMs, and user decisions. To capture contextual information between user queries and optimal LLMs, PersonalizedRouter converts the interaction data into a heterogeneous graph, where the relationships between different types of nodes are represented by edges. To evaluate adaptability across users, we design two strategies: the multi-cost-efficiency simulation strategy and the LLM-as-a-Judge strategy. In addition, we construct PersonaRoute-Bench, a large-scale benchmark with 1,000 simulated users and 10 LLMs. Experimental results show that PersonalizedRouter significantly outperforms existing LLM selection methods and surpasses the strongest methods by a large margin of 15.38% and 9.83% under two simulation strategies. On the PersonaRoute-Bench with 1,000 users, it further surpasses the best methods by 16.19% and 59.69% while maintaining higher efficiency. Moreover, PersonalizedRouter demonstrates strong few-shot generalization, achieving 64.81% and 85.80% of the fully trained model's performance when adapting to new users and new LLMs.

Tim Poštuvan, Jiaxuan You, Mohammadreza Banaei et al.

One of the most important factors that contribute to the success of a machine learning model is a good training objective. Training objective crucially influences the model's performance and generalization capabilities. This paper specifically focuses on graph neural network training objective for link prediction, which has not been explored in the existing literature. Here, the training objective includes, among others, a negative sampling strategy, and various hyperparameters, such as edge message ratio which controls how training edges are used. Commonly, these hyperparameters are fine-tuned by complete grid search, which is very time-consuming and model-dependent. To mitigate these limitations, we propose Adaptive Grid Search (AdaGrid), which dynamically adjusts the edge message ratio during training. It is model agnostic and highly scalable with a fully customizable computational budget. Through extensive experiments, we show that AdaGrid can boost the performance of the models up to $1.9\%$ while being nine times more time-efficient than a complete search. Overall, AdaGrid represents an effective automated algorithm for designing machine learning training objectives.

Jiaxuan You, Jonathan Gomes-Selman, Rex Ying et al.

Message passing Graph Neural Networks (GNNs) provide a powerful modeling framework for relational data. However, the expressive power of existing GNNs is upper-bounded by the 1-Weisfeiler-Lehman (1-WL) graph isomorphism test, which means GNNs that are not able to predict node clustering coefficients and shortest path distances, and cannot differentiate between different d-regular graphs. Here we develop a class of message passing GNNs, named Identity-aware Graph Neural Networks (ID-GNNs), with greater expressive power than the 1-WL test. ID-GNN offers a minimal but powerful solution to limitations of existing GNNs. ID-GNN extends existing GNN architectures by inductively considering nodes' identities during message passing. To embed a given node, ID-GNN first extracts the ego network centered at the node, then conducts rounds of heterogeneous message passing, where different sets of parameters are applied to the center node than to other surrounding nodes in the ego network. We further propose a simplified but faster version of ID-GNN that injects node identity information as augmented node features. Altogether, both versions of ID-GNN represent general extensions of message passing GNNs, where experiments show that transforming existing GNNs to ID-GNNs yields on average 40% accuracy improvement on challenging node, edge, and graph property prediction tasks; 3% accuracy improvement on node and graph classification benchmarks; and 15% ROC AUC improvement on real-world link prediction tasks. Additionally, ID-GNNs demonstrate improved or comparable performance over other task-specific graph networks.

Jiaxuan You, Rex Ying, Jure Leskovec

The rapid evolution of Graph Neural Networks (GNNs) has led to a growing number of new architectures as well as novel applications. However, current research focuses on proposing and evaluating specific architectural designs of GNNs, as opposed to studying the more general design space of GNNs that consists of a Cartesian product of different design dimensions, such as the number of layers or the type of the aggregation function. Additionally, GNN designs are often specialized to a single task, yet few efforts have been made to understand how to quickly find the best GNN design for a novel task or a novel dataset. Here we define and systematically study the architectural design space for GNNs which consists of 315,000 different designs over 32 different predictive tasks. Our approach features three key innovations: (1) A general GNN design space; (2) a GNN task space with a similarity metric, so that for a given novel task/dataset, we can quickly identify/transfer the best performing architecture; (3) an efficient and effective design space evaluation method which allows insights to be distilled from a huge number of model-task combinations. Our key results include: (1) A comprehensive set of guidelines for designing well-performing GNNs; (2) while best GNN designs for different tasks vary significantly, the GNN task space allows for transferring the best designs across different tasks; (3) models discovered using our design space achieve state-of-the-art performance. Overall, our work offers a principled and scalable approach to transition from studying individual GNN designs for specific tasks, to systematically studying the GNN design space and the task space. Finally, we release GraphGym, a powerful platform for exploring different GNN designs and tasks. GraphGym features modularized GNN implementation, standardized GNN evaluation, and reproducible and scalable experiment management.

Jiaxuan You, Xiaobai Ma, Daisy Yi Ding et al.

Machine learning with missing data has been approached in two different ways, including feature imputation where missing feature values are estimated based on observed values, and label prediction where downstream labels are learned directly from incomplete data. However, existing imputation models tend to have strong prior assumptions and cannot learn from downstream tasks, while models targeting label prediction often involve heuristics and can encounter scalability issues. Here we propose GRAPE, a graph-based framework for feature imputation as well as label prediction. GRAPE tackles the missing data problem using a graph representation, where the observations and features are viewed as two types of nodes in a bipartite graph, and the observed feature values as edges. Under the GRAPE framework, the feature imputation is formulated as an edge-level prediction task and the label prediction as a node-level prediction task. These tasks are then solved with Graph Neural Networks. Experimental results on nine benchmark datasets show that GRAPE yields 20% lower mean absolute error for imputation tasks and 10% lower for label prediction tasks, compared with existing state-of-the-art methods.

Bin Wang, Guangtao Wang, Jing Huang et al.

Commonsense knowledge graph (CKG) is a special type of knowledge graph (KG), where entities are composed of free-form text. However, most existing CKG completion methods focus on the setting where all the entities are presented at training time. Although this setting is standard for conventional KG completion, it has limitations for CKG completion. At test time, entities in CKGs can be unseen because they may have unseen text/names and entities may be disconnected from the training graph, since CKGs are generally very sparse. Here, we propose to study the inductive learning setting for CKG completion where unseen entities may present at test time. We develop a novel learning framework named InductivE. Different from previous approaches, InductiveE ensures the inductive learning capability by directly computing entity embeddings from raw entity attributes/text. InductiveE consists of a free-text encoder, a graph encoder, and a KG completion decoder. Specifically, the free-text encoder first extracts the textual representation of each entity based on the pre-trained language model and word embedding. The graph encoder is a gated relational graph convolutional neural network that learns from a densified graph for more informative entity representation learning. We develop a method that densifies CKGs by adding edges among semantic-related entities and provide more supportive information for unseen entities, leading to better generalization ability of entity embedding for unseen entities. Finally, inductiveE employs Conv-TransE as the CKG completion decoder. Experimental results show that InductiveE significantly outperforms state-of-the-art baselines in both standard and inductive settings on ATOMIC and ConceptNet benchmarks. InductivE performs especially well on inductive scenarios where it achieves above 48% improvement over present methods.

Jiaxuan You, Jure Leskovec, Kaiming He et al.

Neural networks are often represented as graphs of connections between neurons. However, despite their wide use, there is currently little understanding of the relationship between the graph structure of the neural network and its predictive performance. Here we systematically investigate how does the graph structure of neural networks affect their predictive performance. To this end, we develop a novel graph-based representation of neural networks called relational graph, where layers of neural network computation correspond to rounds of message exchange along the graph structure. Using this representation we show that: (1) a "sweet spot" of relational graphs leads to neural networks with significantly improved predictive performance; (2) neural network's performance is approximately a smooth function of the clustering coefficient and average path length of its relational graph; (3) our findings are consistent across many different tasks and datasets; (4) the sweet spot can be identified efficiently; (5) top-performing neural networks have graph structure surprisingly similar to those of real biological neural networks. Our work opens new directions for the design of neural architectures and the understanding on neural networks in general.

Rex, Ying, Zhaoyu Lou et al.

Subgraph matching is the problem of determining the presence and location(s) of a given query graph in a large target graph. Despite being an NP-complete problem, the subgraph matching problem is crucial in domains ranging from network science and database systems to biochemistry and cognitive science. However, existing techniques based on combinatorial matching and integer programming cannot handle matching problems with both large target and query graphs. Here we propose NeuroMatch, an accurate, efficient, and robust neural approach to subgraph matching. NeuroMatch decomposes query and target graphs into small subgraphs and embeds them using graph neural networks. Trained to capture geometric constraints corresponding to subgraph relations, NeuroMatch then efficiently performs subgraph matching directly in the embedding space. Experiments demonstrate NeuroMatch is 100x faster than existing combinatorial approaches and 18% more accurate than existing approximate subgraph matching methods.

Jiaxuan You, Haoze Wu, Clark Barrett et al.

The Boolean Satisfiability (SAT) problem is the canonical NP-complete problem and is fundamental to computer science, with a wide array of applications in planning, verification, and theorem proving. Developing and evaluating practical SAT solvers relies on extensive empirical testing on a set of real-world benchmark formulas. However, the availability of such real-world SAT formulas is limited. While these benchmark formulas can be augmented with synthetically generated ones, existing approaches for doing so are heavily hand-crafted and fail to simultaneously capture a wide range of characteristics exhibited by real-world SAT instances. In this work, we present G2SAT, the first deep generative framework that learns to generate SAT formulas from a given set of input formulas. Our key insight is that SAT formulas can be transformed into latent bipartite graph representations which we model using a specialized deep generative neural network. We show that G2SAT can generate SAT formulas that closely resemble given real-world SAT instances, as measured by both graph metrics and SAT solver behavior. Further, we show that our synthetic SAT formulas could be used to improve SAT solver performance on real-world benchmarks, which opens up new opportunities for the continued development of SAT solvers and a deeper understanding of their performance.

Jiaxuan You, Rex Ying, Jure Leskovec

Learning node embeddings that capture a node's position within the broader graph structure is crucial for many prediction tasks on graphs. However, existing Graph Neural Network (GNN) architectures have limited power in capturing the position/location of a given node with respect to all other nodes of the graph. Here we propose Position-aware Graph Neural Networks (P-GNNs), a new class of GNNs for computing position-aware node embeddings. P-GNN first samples sets of anchor nodes, computes the distance of a given target node to each anchor-set,and then learns a non-linear distance-weighted aggregation scheme over the anchor-sets. This way P-GNNs can capture positions/locations of nodes with respect to the anchor nodes. P-GNNs have several advantages: they are inductive, scalable,and can incorporate node feature information. We apply P-GNNs to multiple prediction tasks including link prediction and community detection. We show that P-GNNs consistently outperform state of the art GNNs, with up to 66% improvement in terms of the ROC AUC score.

Zhihao Jia, Sina Lin, Rex Ying et al.

Graph Neural Networks (GNNs) are based on repeated aggregations of information across nodes' neighbors in a graph. However, because common neighbors are shared between different nodes, this leads to repeated and inefficient computations. We propose Hierarchically Aggregated computation Graphs (HAGs), a new GNN graph representation that explicitly avoids redundancy by managing intermediate aggregation results hierarchically, eliminating repeated computations and unnecessary data transfers in GNN training and inference. We introduce an accurate cost function to quantitatively evaluate the runtime performance of different HAGs and use a novel HAG search algorithm to find optimized HAGs. Experiments show that the HAG representation significantly outperforms the standard GNN graph representation by increasing the end-to-end training throughput by up to 2.8x and reducing the aggregations and data transfers in GNN training by up to 6.3x and 5.6x, while maintaining the original model accuracy.

Jiaxuan You, Yichen Wang, Aditya Pal et al.

Recommender systems that can learn from cross-session data to dynamically predict the next item a user will choose are crucial for online platforms. However, existing approaches often use out-of-the-box sequence models which are limited by speed and memory consumption, are often infeasible for production environments, and usually do not incorporate cross-session information, which is crucial for effective recommendations. Here we propose Hierarchical Temporal Convolutional Networks (HierTCN), a hierarchical deep learning architecture that makes dynamic recommendations based on users' sequential multi-session interactions with items. HierTCN is designed for web-scale systems with billions of items and hundreds of millions of users. It consists of two levels of models: The high-level model uses Recurrent Neural Networks (RNN) to aggregate users' evolving long-term interests across different sessions, while the low-level model is implemented with Temporal Convolutional Networks (TCN), utilizing both the long-term interests and the short-term interactions within sessions to predict the next interaction. We conduct extensive experiments on a public XING dataset and a large-scale Pinterest dataset that contains 6 million users with 1.6 billion interactions. We show that HierTCN is 2.5x faster than RNN-based models and uses 90% less data memory compared to TCN-based models. We further develop an effective data caching scheme and a queue-based mini-batch generator, enabling our model to be trained within 24 hours on a single GPU. Our model consistently outperforms state-of-the-art dynamic recommendation methods, with up to 18% improvement in recall and 10% in mean reciprocal rank.

Rex Ying, Dylan Bourgeois, Jiaxuan You et al.

Graph Neural Networks (GNNs) are a powerful tool for machine learning on graphs.GNNs combine node feature information with the graph structure by recursively passing neural messages along edges of the input graph. However, incorporating both graph structure and feature information leads to complex models, and explaining predictions made by GNNs remains unsolved. Here we propose GNNExplainer, the first general, model-agnostic approach for providing interpretable explanations for predictions of any GNN-based model on any graph-based machine learning task. Given an instance, GNNExplainer identifies a compact subgraph structure and a small subset of node features that have a crucial role in GNN's prediction. Further, GNNExplainer can generate consistent and concise explanations for an entire class of instances. We formulate GNNExplainer as an optimization task that maximizes the mutual information between a GNN's prediction and distribution of possible subgraph structures. Experiments on synthetic and real-world graphs show that our approach can identify important graph structures as well as node features, and outperforms baselines by 17.1% on average. GNNExplainer provides a variety of benefits, from the ability to visualize semantically relevant structures to interpretability, to giving insights into errors of faulty GNNs.

Rex Ying, Jiaxuan You, Christopher Morris et al.

Recently, graph neural networks (GNNs) have revolutionized the field of graph representation learning through effectively learned node embeddings, and achieved state-of-the-art results in tasks such as node classification and link prediction. However, current GNN methods are inherently flat and do not learn hierarchical representations of graphs---a limitation that is especially problematic for the task of graph classification, where the goal is to predict the label associated with an entire graph. Here we propose DiffPool, a differentiable graph pooling module that can generate hierarchical representations of graphs and can be combined with various graph neural network architectures in an end-to-end fashion. DiffPool learns a differentiable soft cluster assignment for nodes at each layer of a deep GNN, mapping nodes to a set of clusters, which then form the coarsened input for the next GNN layer. Our experimental results show that combining existing GNN methods with DiffPool yields an average improvement of 5-10% accuracy on graph classification benchmarks, compared to all existing pooling approaches, achieving a new state-of-the-art on four out of five benchmark data sets.

Jiaxuan You, Bowen Liu, Rex Ying et al.

Generating novel graph structures that optimize given objectives while obeying some given underlying rules is fundamental for chemistry, biology and social science research. This is especially important in the task of molecular graph generation, whose goal is to discover novel molecules with desired properties such as drug-likeness and synthetic accessibility, while obeying physical laws such as chemical valency. However, designing models to find molecules that optimize desired properties while incorporating highly complex and non-differentiable rules remains to be a challenging task. Here we propose Graph Convolutional Policy Network (GCPN), a general graph convolutional network based model for goal-directed graph generation through reinforcement learning. The model is trained to optimize domain-specific rewards and adversarial loss through policy gradient, and acts in an environment that incorporates domain-specific rules. Experimental results show that GCPN can achieve 61% improvement on chemical property optimization over state-of-the-art baselines while resembling known molecules, and achieve 184% improvement on the constrained property optimization task.

Jiaxuan You, Rex Ying, Xiang Ren et al.

Modeling and generating graphs is fundamental for studying networks in biology, engineering, and social sciences. However, modeling complex distributions over graphs and then efficiently sampling from these distributions is challenging due to the non-unique, high-dimensional nature of graphs and the complex, non-local dependencies that exist between edges in a given graph. Here we propose GraphRNN, a deep autoregressive model that addresses the above challenges and approximates any distribution of graphs with minimal assumptions about their structure. GraphRNN learns to generate graphs by training on a representative set of graphs and decomposes the graph generation process into a sequence of node and edge formations, conditioned on the graph structure generated so far. In order to quantitatively evaluate the performance of GraphRNN, we introduce a benchmark suite of datasets, baselines and novel evaluation metrics based on Maximum Mean Discrepancy, which measure distances between sets of graphs. Our experiments show that GraphRNN significantly outperforms all baselines, learning to generate diverse graphs that match the structural characteristics of a target set, while also scaling to graphs 50 times larger than previous deep models.