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Oct 16

PIGEON: Optimizing CUDA Code Generator for End-to-End Training and Inference of Relational Graph Neural Networks

Relational graph neural networks (RGNNs) are graph neural networks (GNNs) with dedicated structures for modeling the different types of nodes and/or edges in heterogeneous graphs. While RGNNs have been increasingly adopted in many real-world applications due to their versatility and accuracy, they pose performance and system design challenges due to their inherent computation patterns, gap between the programming interface and kernel APIs, and heavy programming efforts in optimizing kernels caused by their coupling with data layout and heterogeneity. To systematically address these challenges, we propose Pigeon, a novel two-level intermediate representation (IR) and its code generator framework, that (a) represents the key properties of the RGNN models to bridge the gap between the programming interface and kernel APIs, (b) decouples model semantics, data layout, and operators-specific optimization from each other to reduce programming efforts, (c) expresses and leverages optimization opportunities in inter-operator transforms, data layout, and operator-specific schedules. By building on one general matrix multiply (GEMM) template and a node/edge traversal template, Pigeon achieves up to 7.8x speed-up in inference and 5.6x speed-up in training compared with the state-of-the-art public systems in select models, i.e., RGCN, RGAT, HGT, when running heterogeneous graphs provided by Deep Graph Library (DGL) and Open Graph Benchmark (OGB). Pigeon also triggers fewer out-of-memory (OOM) errors. In addition, we propose linear operator fusion and compact materialization to further accelerate the system by up to 2.2x.

  • 7 authors
·
Jan 16, 2023

Systematic Relational Reasoning With Epistemic Graph Neural Networks

Developing models that can learn to reason is a notoriously challenging problem. We focus on reasoning in relational domains, where the use of Graph Neural Networks (GNNs) seems like a natural choice. However, previous work has shown that regular GNNs lack the ability to systematically generalize from training examples on test graphs requiring longer inference chains, which fundamentally limits their reasoning abilities. A common solution relies on neuro-symbolic methods that systematically reason by learning rules, but their scalability is often limited and they tend to make unrealistically strong assumptions, e.g.\ that the answer can always be inferred from a single relational path. We propose the Epistemic GNN (EpiGNN), a novel parameter-efficient and scalable GNN architecture with an epistemic inductive bias for systematic reasoning. Node embeddings in EpiGNNs are treated as epistemic states, and message passing is implemented accordingly. We show that EpiGNNs achieve state-of-the-art results on link prediction tasks that require systematic reasoning. Furthermore, for inductive knowledge graph completion, EpiGNNs rival the performance of state-of-the-art specialized approaches. Finally, we introduce two new benchmarks that go beyond standard relational reasoning by requiring the aggregation of information from multiple paths. Here, existing neuro-symbolic approaches fail, yet EpiGNNs learn to reason accurately. Code and datasets are available at https://github.com/erg0dic/gnn-sg.

  • 2 authors
·
Jul 24, 2024

Who to Trust in Multi-Robot Systems: Joint Robot and Object Hypothesis Trust Inference via Neural-Symbolic Cross-Validation

Multi-robot systems (MRS) offer significant advantages over single-robot platforms by enabling information sharing and coordination for different tasks in complex environments. However, reliable cooperation critically depends on inferring trust over both information sources and their reported hypotheses, particularly under partial observability and potential adversarial interference. Existing approaches frequently depend on pre-established trust relationships or side-channel information, which may not be available or reliable in realistic MRS deployments. This work introduces NeST-Bayes, a neural-symbolic framework that jointly infers robot and hypothesis trust using only inter-robot observation consistency, without requiring preassigned robot trust, reputation information, or side-channel identity signals. NeST-Bayes infers instantaneous trust evidence scores for robots and object hypotheses by reasoning over ego-centric relational graphs constructed from cross-robot observation consistency. These evidence scores are accumulated over time through Bayesian updates of Beta-distributed trust beliefs to maintain temporally consistent trust estimates. Extensive evaluations show that NeST-Bayes achieves the highest mean object precision and robot recall across all benchmark settings, and the highest robot precision and object recall in most settings, compared to trust-based methods. Under aggressive optimized attacks, it achieves 98.8\% robot precision with 93.8\% recall and 98.3\% object precision with 95.4\% recall. In an occlusion-rich Webots warehouse, it maintains 92.5\% robot precision with 92.0\% recall and 97.3\% object precision with 85.0\% recall. These results demonstrate joint improvements in the reliability and coverage of retained information.

Recurrent Relational Networks

This paper is concerned with learning to solve tasks that require a chain of interdependent steps of relational inference, like answering complex questions about the relationships between objects, or solving puzzles where the smaller elements of a solution mutually constrain each other. We introduce the recurrent relational network, a general purpose module that operates on a graph representation of objects. As a generalization of Santoro et al. [2017]'s relational network, it can augment any neural network model with the capacity to do many-step relational reasoning. We achieve state of the art results on the bAbI textual question-answering dataset with the recurrent relational network, consistently solving 20/20 tasks. As bAbI is not particularly challenging from a relational reasoning point of view, we introduce Pretty-CLEVR, a new diagnostic dataset for relational reasoning. In the Pretty-CLEVR set-up, we can vary the question to control for the number of relational reasoning steps that are required to obtain the answer. Using Pretty-CLEVR, we probe the limitations of multi-layer perceptrons, relational and recurrent relational networks. Finally, we show how recurrent relational networks can learn to solve Sudoku puzzles from supervised training data, a challenging task requiring upwards of 64 steps of relational reasoning. We achieve state-of-the-art results amongst comparable methods by solving 96.6% of the hardest Sudoku puzzles.

  • 3 authors
·
Nov 21, 2017

Relational inductive biases, deep learning, and graph networks

Artificial intelligence (AI) has undergone a renaissance recently, making major progress in key domains such as vision, language, control, and decision-making. This has been due, in part, to cheap data and cheap compute resources, which have fit the natural strengths of deep learning. However, many defining characteristics of human intelligence, which developed under much different pressures, remain out of reach for current approaches. In particular, generalizing beyond one's experiences--a hallmark of human intelligence from infancy--remains a formidable challenge for modern AI. The following is part position paper, part review, and part unification. We argue that combinatorial generalization must be a top priority for AI to achieve human-like abilities, and that structured representations and computations are key to realizing this objective. Just as biology uses nature and nurture cooperatively, we reject the false choice between "hand-engineering" and "end-to-end" learning, and instead advocate for an approach which benefits from their complementary strengths. We explore how using relational inductive biases within deep learning architectures can facilitate learning about entities, relations, and rules for composing them. We present a new building block for the AI toolkit with a strong relational inductive bias--the graph network--which generalizes and extends various approaches for neural networks that operate on graphs, and provides a straightforward interface for manipulating structured knowledge and producing structured behaviors. We discuss how graph networks can support relational reasoning and combinatorial generalization, laying the foundation for more sophisticated, interpretable, and flexible patterns of reasoning. As a companion to this paper, we have released an open-source software library for building graph networks, with demonstrations of how to use them in practice.

  • 27 authors
·
Jun 4, 2018

Geometric Factual Recall in Transformers

How do transformer language models memorize factual associations? A common view casts internal weight matrices as associative memories over pairs of embeddings, requiring parameter counts that scale linearly with the number of facts. We develop a theoretical and empirical account of an alternative, geometric form of memorization in which learned embeddings encode relational structure directly, and the MLP plays a qualitatively different role. In a controlled setting where a single-layer transformer must memorize random bijections from subjects to a shared attribute set, we prove that a logarithmic embedding dimension suffices: subject embeddings encode linear superpositions of their associated attribute vectors, and a small MLP acts as a relation-conditioned selector that extracts the relevant attribute via ReLU gating, and not as an associative key-value mapping. We extend these results to the multi-hop setting -- chains of relational queries such as ``Who is the mother of the wife of x?'' -- providing constructions with and without chain-of-thought that exhibit a provable capacity-depth tradeoff, complemented by a matching information-theoretic lower bound. Empirically, gradient descent discovers solutions with precisely the predicted structure. Once trained, the MLP transfers zero-shot to entirely new bijections when subject embeddings are appropriately re-initialized, revealing that it has learned a generic selection mechanism rather than memorized any particular set of facts.

  • 4 authors
·
May 11 1

Embedding Cardinality Constraints in Neural Link Predictors

Neural link predictors learn distributed representations of entities and relations in a knowledge graph. They are remarkably powerful in the link prediction and knowledge base completion tasks, mainly due to the learned representations that capture important statistical dependencies in the data. Recent works in the area have focused on either designing new scoring functions or incorporating extra information into the learning process to improve the representations. Yet the representations are mostly learned from the observed links between entities, ignoring commonsense or schema knowledge associated with the relations in the graph. A fundamental aspect of the topology of relational data is the cardinality information, which bounds the number of predictions given for a relation between a minimum and maximum frequency. In this paper, we propose a new regularisation approach to incorporate relation cardinality constraints to any existing neural link predictor without affecting their efficiency or scalability. Our regularisation term aims to impose boundaries on the number of predictions with high probability, thus, structuring the embeddings space to respect commonsense cardinality assumptions resulting in better representations. Experimental results on Freebase, WordNet and YAGO show that, given suitable prior knowledge, the proposed method positively impacts the predictive accuracy of downstream link prediction tasks.

  • 3 authors
·
Dec 15, 2018

Evaluating Relational Reasoning in LLMs with REL

Relational reasoning is the ability to infer relations that jointly bind multiple entities, attributes, or variables. This ability is central to scientific reasoning, but existing evaluations of relational reasoning in large language models often focus on structured inputs such as tables, graphs, or synthetic tasks, and do not isolate the difficulty introduced by higher-arity relational binding. We study this problem through the lens of Relational Complexity (RC), which we define as the minimum number of independent entities or operands that must be simultaneously bound to apply a relation. RC provides a principled way to vary reasoning difficulty while controlling for confounders such as input size, vocabulary, and representational choices. Building on RC, we introduce REL, a generative benchmark framework spanning algebra, chemistry, and biology that varies RC within each domain. Across frontier LLMs, performance degrades consistently and monotonically as RC increases, even when the total number of entities is held fixed. This failure mode persists with increased test-time compute and in-context learning, suggesting a limitation tied to the arity of the required relational binding rather than to insufficient inference steps or lack of exposure to examples. Our results identify a regime of higher-arity reasoning in which current models struggle, and motivate re-examining benchmarks through the lens of relational complexity.

  • 5 authors
·
Apr 13

Probabilistic Reasoning via Deep Learning: Neural Association Models

In this paper, we propose a new deep learning approach, called neural association model (NAM), for probabilistic reasoning in artificial intelligence. We propose to use neural networks to model association between any two events in a domain. Neural networks take one event as input and compute a conditional probability of the other event to model how likely these two events are to be associated. The actual meaning of the conditional probabilities varies between applications and depends on how the models are trained. In this work, as two case studies, we have investigated two NAM structures, namely deep neural networks (DNN) and relation-modulated neural nets (RMNN), on several probabilistic reasoning tasks in AI, including recognizing textual entailment, triple classification in multi-relational knowledge bases and commonsense reasoning. Experimental results on several popular datasets derived from WordNet, FreeBase and ConceptNet have all demonstrated that both DNNs and RMNNs perform equally well and they can significantly outperform the conventional methods available for these reasoning tasks. Moreover, compared with DNNs, RMNNs are superior in knowledge transfer, where a pre-trained model can be quickly extended to an unseen relation after observing only a few training samples. To further prove the effectiveness of the proposed models, in this work, we have applied NAMs to solving challenging Winograd Schema (WS) problems. Experiments conducted on a set of WS problems prove that the proposed models have the potential for commonsense reasoning.

  • 7 authors
·
Mar 24, 2016

Graph-Aware Isomorphic Attention for Adaptive Dynamics in Transformers

We present an approach to modifying Transformer architectures by integrating graph-aware relational reasoning into the attention mechanism, merging concepts from graph neural networks and language modeling. Building on the inherent connection between attention and graph theory, we reformulate the Transformer's attention mechanism as a graph operation and propose Graph-Aware Isomorphic Attention. This method leverages advanced graph modeling strategies, including Graph Isomorphism Networks (GIN) and Principal Neighborhood Aggregation (PNA), to enrich the representation of relational structures. Our approach captures complex dependencies and generalizes across tasks, as evidenced by a reduced generalization gap and improved learning performance. Additionally, we expand the concept of graph-aware attention to introduce Sparse GIN-Attention, a fine-tuning approach that employs sparse GINs. By interpreting attention matrices as sparse adjacency graphs, this technique enhances the adaptability of pre-trained foundational models with minimal computational overhead, endowing them with graph-aware capabilities. Sparse GIN-Attention fine-tuning achieves improved training dynamics and better generalization compared to alternative methods like low-rank adaption (LoRA). We discuss latent graph-like structures within traditional attention mechanisms, offering a new lens through which Transformers can be understood. By evolving Transformers as hierarchical GIN models for relational reasoning. This perspective suggests profound implications for foundational model development, enabling the design of architectures that dynamically adapt to both local and global dependencies. Applications in bioinformatics, materials science, language modeling, and beyond could benefit from this synthesis of relational and sequential data modeling, setting the stage for interpretable and generalizable modeling strategies.

  • 1 authors
·
Jan 4, 2025 2

LowFER: Low-rank Bilinear Pooling for Link Prediction

Knowledge graphs are incomplete by nature, with only a limited number of observed facts from the world knowledge being represented as structured relations between entities. To partly address this issue, an important task in statistical relational learning is that of link prediction or knowledge graph completion. Both linear and non-linear models have been proposed to solve the problem. Bilinear models, while expressive, are prone to overfitting and lead to quadratic growth of parameters in number of relations. Simpler models have become more standard, with certain constraints on bilinear map as relation parameters. In this work, we propose a factorized bilinear pooling model, commonly used in multi-modal learning, for better fusion of entities and relations, leading to an efficient and constraint-free model. We prove that our model is fully expressive, providing bounds on the embedding dimensionality and factorization rank. Our model naturally generalizes Tucker decomposition based TuckER model, which has been shown to generalize other models, as efficient low-rank approximation without substantially compromising the performance. Due to low-rank approximation, the model complexity can be controlled by the factorization rank, avoiding the possible cubic growth of TuckER. Empirically, we evaluate on real-world datasets, reaching on par or state-of-the-art performance. At extreme low-ranks, model preserves the performance while staying parameter efficient.

  • 4 authors
·
Aug 25, 2020

When and why vision-language models behave like bags-of-words, and what to do about it?

Despite the success of large vision and language models (VLMs) in many downstream applications, it is unclear how well they encode compositional information. Here, we create the Attribution, Relation, and Order (ARO) benchmark to systematically evaluate the ability of VLMs to understand different types of relationships, attributes, and order. ARO consists of Visual Genome Attribution, to test the understanding of objects' properties; Visual Genome Relation, to test for relational understanding; and COCO & Flickr30k-Order, to test for order sensitivity. ARO is orders of magnitude larger than previous benchmarks of compositionality, with more than 50,000 test cases. We show where state-of-the-art VLMs have poor relational understanding, can blunder when linking objects to their attributes, and demonstrate a severe lack of order sensitivity. VLMs are predominantly trained and evaluated on large datasets with rich compositional structure in the images and captions. Yet, training on these datasets has not been enough to address the lack of compositional understanding, and evaluating on these datasets has failed to surface this deficiency. To understand why these limitations emerge and are not represented in the standard tests, we zoom into the evaluation and training procedures. We demonstrate that it is possible to perform well on retrieval over existing datasets without using the composition and order information. Given that contrastive pretraining optimizes for retrieval on datasets with similar shortcuts, we hypothesize that this can explain why the models do not need to learn to represent compositional information. This finding suggests a natural solution: composition-aware hard negative mining. We show that a simple-to-implement modification of contrastive learning significantly improves the performance on tasks requiring understanding of order and compositionality.

  • 5 authors
·
Oct 4, 2022

Complex Query Answering with Neural Link Predictors

Neural link predictors are immensely useful for identifying missing edges in large scale Knowledge Graphs. However, it is still not clear how to use these models for answering more complex queries that arise in a number of domains, such as queries using logical conjunctions (land), disjunctions (lor) and existential quantifiers (exists), while accounting for missing edges. In this work, we propose a framework for efficiently answering complex queries on incomplete Knowledge Graphs. We translate each query into an end-to-end differentiable objective, where the truth value of each atom is computed by a pre-trained neural link predictor. We then analyse two solutions to the optimisation problem, including gradient-based and combinatorial search. In our experiments, the proposed approach produces more accurate results than state-of-the-art methods -- black-box neural models trained on millions of generated queries -- without the need of training on a large and diverse set of complex queries. Using orders of magnitude less training data, we obtain relative improvements ranging from 8% up to 40% in Hits@3 across different knowledge graphs containing factual information. Finally, we demonstrate that it is possible to explain the outcome of our model in terms of the intermediate solutions identified for each of the complex query atoms. All our source code and datasets are available online, at https://github.com/uclnlp/cqd.

  • 4 authors
·
Nov 6, 2020

Relation-Aware Graph Foundation Model

In recent years, large language models (LLMs) have demonstrated remarkable generalization capabilities across various natural language processing (NLP) tasks. Similarly, graph foundation models (GFMs) have emerged as a promising direction in graph learning, aiming to generalize across diverse datasets through large-scale pre-training. However, unlike language models that rely on explicit token representations, graphs lack a well-defined unit for generalization, making it challenging to design effective pre-training strategies. In this work, we propose REEF, a novel framework that leverages relation tokens as the basic units for GFMs. Inspired by the token vocabulary in LLMs, we construct a relation vocabulary of relation tokens to store relational information within graphs. To accommodate diverse relations, we introduce two hypernetworks that adaptively generate the parameters of aggregators and classifiers in graph neural networks based on relation tokens. In addition, we design another hypernetwork to construct dataset-specific projectors and incorporate a dataset-level feature bias into the initial node representations, enhancing flexibility across different datasets with the same relation. Further, we adopt graph data augmentation and a mixed-dataset pre-training strategy, allowing REEF to capture relational diversity more effectively and exhibit strong generalization capabilities. Extensive experiments show that REEF significantly outperforms existing methods on both pre-training and transfer learning tasks, underscoring its potential as a powerful foundation model for graph-based applications.

  • 6 authors
·
May 16, 2025

Relational Deep Learning: Graph Representation Learning on Relational Databases

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.

  • 9 authors
·
Dec 7, 2023

RelateAnything: Real-Time Open-Vocabulary Relation Prediction From Any Inputs

Open-vocabulary detection accepts any class list at inference, and promptable segmentation returns regions without class names: the taxonomy has left the model and become an input. Relation prediction has not. Scene-graph models are still trained and evaluated on the 50 or 56 predicates of one annotation style, their relation head conditioned on object labels and so tied to one detector. Three obstacles explain this, none primarily modelling: no relation corpus is both free-text and verified, a label-conditioned architecture cannot accept a vocabulary it was not trained on, and the standard metric rewards agreement with the training corpus, so a larger vocabulary scores as a regression. We present RelateAnything, a 53M-parameter model taking an image and regions from any source and returning scored relations over a predicate vocabulary supplied at inference as strings. Object labels are never an input, so the region source can change without retraining, and the vocabulary is a bank of text embeddings, not a learned classifier. It runs at 20 ms/frame. Training over 19,103 predicates requires positive-unlabeled supervision and a text encoder that separates antonyms, which contrastive encoders embed at cosine 0.95. To supply the supervision we build RA-4M, 474k images and 4.3M relations over 10,102 free-text predicates, generated against numbered box markers and geometrically verified. To measure it we build OV-SGG-Bench, six axes scored across datasets that the priors standard recall rewards cannot satisfy. On three cross-dataset benchmarks and a fourth zero-shot, RelateAnything has 2.3-3.5x the mean recall of the strongest open-vocabulary method of comparable scale, margins that survive a real detector, and leads a 3B-VLM scene-graph model on both metrics at under 2% of its parameters. In-domain measurement overstates transfer gains ~5x. Model, corpus and benchmark are public.

  • 1 authors
·
Sep 10 2

Grounding Referring Expressions in Images by Variational Context

We focus on grounding (i.e., localizing or linking) referring expressions in images, e.g., "largest elephant standing behind baby elephant". This is a general yet challenging vision-language task since it does not only require the localization of objects, but also the multimodal comprehension of context --- visual attributes (e.g., "largest", "baby") and relationships (e.g., "behind") that help to distinguish the referent from other objects, especially those of the same category. Due to the exponential complexity involved in modeling the context associated with multiple image regions, existing work oversimplifies this task to pairwise region modeling by multiple instance learning. In this paper, we propose a variational Bayesian method, called Variational Context, to solve the problem of complex context modeling in referring expression grounding. Our model exploits the reciprocal relation between the referent and context, i.e., either of them influences the estimation of the posterior distribution of the other, and thereby the search space of context can be greatly reduced, resulting in better localization of referent. We develop a novel cue-specific language-vision embedding network that learns this reciprocity model end-to-end. We also extend the model to the unsupervised setting where no annotation for the referent is available. Extensive experiments on various benchmarks show consistent improvement over state-of-the-art methods in both supervised and unsupervised settings.

  • 3 authors
·
Dec 5, 2017

Neural Common Neighbor with Completion for Link Prediction

Despite its outstanding performance in various graph tasks, vanilla Message Passing Neural Network (MPNN) usually fails in link prediction tasks, as it only uses representations of two individual target nodes and ignores the pairwise relation between them. To capture the pairwise relations, some models add manual features to the input graph and use the output of MPNN to produce pairwise representations. In contrast, others directly use manual features as pairwise representations. Though this simplification avoids applying a GNN to each link individually and thus improves scalability, these models still have much room for performance improvement due to the hand-crafted and unlearnable pairwise features. To upgrade performance while maintaining scalability, we propose Neural Common Neighbor (NCN), which uses learnable pairwise representations. To further boost NCN, we study the unobserved link problem. The incompleteness of the graph is ubiquitous and leads to distribution shifts between the training and test set, loss of common neighbor information, and performance degradation of models. Therefore, we propose two intervention methods: common neighbor completion and target link removal. Combining the two methods with NCN, we propose Neural Common Neighbor with Completion (NCNC). NCN and NCNC outperform recent strong baselines by large margins. NCNC achieves state-of-the-art performance in link prediction tasks. Our code is available at https://github.com/GraphPKU/NeuralCommonNeighbor.

  • 3 authors
·
Feb 2, 2023

SoftReason: A Fully Differentiable Neuro-Soft-Symbolic Deductive Reasoning Architecture over High-Dimensional Perceptual Data

In many reasoning problems, the premises are not observed as discrete symbols, but must be inferred from high-dimensional inputs. Further, the predicate vocabulary, argument structure, and trusted evidence are supplied by a Knowledge Graph (KG), or rule definitions. Classical neuro-symbolic pipelines have a discrete interface between perception and deduction. We present a neuro-soft-symbolic architecture for differentiable deductive reasoning over latent perceptual facts and knowledge-provided predicates. SoftReason removes the gradient gap by representing the deductive state as a local soft interpretation tensor over candidate constants and predicates. Perception proposes probabilistic base facts, KG triples enter as high-confidence soft evidence, and every query anchor, predicate choice, and closure update remains differentiable. Our core innovation is a learned differentiable lift of the immediate-consequence operator. It uses predicate-definition embeddings and latent composition channels to form soft body-predicate mixtures, aggregate over all possible witnesses, propose query-conditioned head facts, and update the interpretation through a monotone probabilistic OR. We instantiate the framework on Knowledge-aware Visual Question Answering (KVQA), and demonstrates how SoftReason supports end-to-end perceptual grounding, KG evidence injection, and differentiable deductive closure in one trainable architecture.

  • 1 authors
·
Aug 6

Relational Visual Similarity

Humans do not just see attribute similarity -- we also see relational similarity. An apple is like a peach because both are reddish fruit, but the Earth is also like a peach: its crust, mantle, and core correspond to the peach's skin, flesh, and pit. This ability to perceive and recognize relational similarity, is arguable by cognitive scientist to be what distinguishes humans from other species. Yet, all widely used visual similarity metrics today (e.g., LPIPS, CLIP, DINO) focus solely on perceptual attribute similarity and fail to capture the rich, often surprising relational similarities that humans perceive. How can we go beyond the visible content of an image to capture its relational properties? How can we bring images with the same relational logic closer together in representation space? To answer these questions, we first formulate relational image similarity as a measurable problem: two images are relationally similar when their internal relations or functions among visual elements correspond, even if their visual attributes differ. We then curate 114k image-caption dataset in which the captions are anonymized -- describing the underlying relational logic of the scene rather than its surface content. Using this dataset, we finetune a Vision-Language model to measure the relational similarity between images. This model serves as the first step toward connecting images by their underlying relational structure rather than their visible appearance. Our study shows that while relational similarity has a lot of real-world applications, existing image similarity models fail to capture it -- revealing a critical gap in visual computing.

  • 9 authors
·
Dec 8, 2025 3

RelBench v2: A Large-Scale Benchmark and Repository for Relational Data

Relational deep learning (RDL) has emerged as a powerful paradigm for learning directly on relational databases by modeling entities and their relationships across multiple interconnected tables. As this paradigm evolves toward larger models and relational foundation models, scalable and realistic benchmarks are essential for enabling systematic evaluation and progress. In this paper, we introduce RelBench v2, a major expansion of the RelBench benchmark for RDL. RelBench v2 adds four large-scale relational datasets spanning scholarly publications, enterprise resource planning, consumer platforms, and clinical records, increasing the benchmark to 11 datasets comprising over 22 million rows across 29 tables. We further introduce autocomplete tasks, a new class of predictive objectives that require models to infer missing attribute values directly within relational tables while respecting temporal constraints, expanding beyond traditional forecasting tasks constructed via SQL queries. In addition, RelBench v2 expands beyond its native datasets by integrating external benchmarks and evaluation frameworks: we translate event streams from the Temporal Graph Benchmark into relational schemas for unified relational-temporal evaluation, interface with ReDeLEx to provide uniform access to 70+ real-world databases suitable for pretraining, and incorporate 4DBInfer datasets and tasks to broaden multi-table prediction coverage. Experimental results demonstrate that RDL models consistently outperform single-table baselines across autocomplete, forecasting, and recommendation tasks, highlighting the importance of modeling relational structure explicitly.

  • 11 authors
·
May 8

On Relation-Specific Neurons in Large Language Models

In large language models (LLMs), certain neurons can store distinct pieces of knowledge learned during pretraining. While knowledge typically appears as a combination of relations and entities, it remains unclear whether some neurons focus on a relation itself -- independent of any entity. We hypothesize such neurons detect a relation in the input text and guide generation involving such a relation. To investigate this, we study the Llama-2 family on a chosen set of relations with a statistics-based method. Our experiments demonstrate the existence of relation-specific neurons. We measure the effect of selectively deactivating candidate neurons specific to relation r on the LLM's ability to handle (1) facts whose relation is r and (2) facts whose relation is a different relation r' neq r. With respect to their capacity for encoding relation information, we give evidence for the following three properties of relation-specific neurons. (i) Neuron cumulativity. The neurons for r present a cumulative effect so that deactivating a larger portion of them results in the degradation of more facts in r. (ii) Neuron versatility. Neurons can be shared across multiple closely related as well as less related relations. Some relation neurons transfer across languages. (iii) Neuron interference. Deactivating neurons specific to one relation can improve LLM generation performance for facts of other relations. We will make our code publicly available at https://github.com/cisnlp/relation-specific-neurons.

cis-lmu CIS, LMU Munich
·
Feb 24, 2025 2

Neural Databases

In recent years, neural networks have shown impressive performance gains on long-standing AI problems, and in particular, answering queries from natural language text. These advances raise the question of whether they can be extended to a point where we can relax the fundamental assumption of database management, namely, that our data is represented as fields of a pre-defined schema. This paper presents a first step in answering that question. We describe NeuralDB, a database system with no pre-defined schema, in which updates and queries are given in natural language. We develop query processing techniques that build on the primitives offered by the state of the art Natural Language Processing methods. We begin by demonstrating that at the core, recent NLP transformers, powered by pre-trained language models, can answer select-project-join queries if they are given the exact set of relevant facts. However, they cannot scale to non-trivial databases and cannot perform aggregation queries. Based on these findings, we describe a NeuralDB architecture that runs multiple Neural SPJ operators in parallel, each with a set of database sentences that can produce one of the answers to the query. The result of these operators is fed to an aggregation operator if needed. We describe an algorithm that learns how to create the appropriate sets of facts to be fed into each of the Neural SPJ operators. Importantly, this algorithm can be trained by the Neural SPJ operator itself. We experimentally validate the accuracy of NeuralDB and its components, showing that we can answer queries over thousands of sentences with very high accuracy.

  • 6 authors
·
Oct 14, 2020

The Curious Case of Analogies: Investigating Analogical Reasoning in Large Language Models

Analogical reasoning is at the core of human cognition, serving as an important foundation for a variety of intellectual activities. While prior work has shown that LLMs can represent task patterns and surface-level concepts, it remains unclear whether these models can encode high-level relational concepts and apply them to novel situations through structured comparisons. In this work, we explore this fundamental aspect using proportional and story analogies, and identify three key findings. First, LLMs effectively encode the underlying relationships between analogous entities; both attributive and relational information propagate through mid-upper layers in correct cases, whereas reasoning failures reflect missing relational information within these layers. Second, unlike humans, LLMs often struggle not only when relational information is missing, but also when attempting to apply it to new entities. In such cases, strategically patching hidden representations at critical token positions can facilitate information transfer to a certain extent. Lastly, successful analogical reasoning in LLMs is marked by strong structural alignment between analogous situations, whereas failures often reflect degraded or misplaced alignment. Overall, our findings reveal that LLMs exhibit emerging but limited capabilities in encoding and applying high-level relational concepts, highlighting both parallels and gaps with human cognition.

KoreaUniversity Korea University
·
Nov 25, 2025 2

Neural-Symbolic Recursive Machine for Systematic Generalization

Despite the tremendous success, existing machine learning models still fall short of human-like systematic generalization -- learning compositional rules from limited data and applying them to unseen combinations in various domains. We propose Neural-Symbolic Recursive Machine (NSR) to tackle this deficiency. The core representation of NSR is a Grounded Symbol System (GSS) with combinatorial syntax and semantics, which entirely emerges from training data. Akin to the neuroscience studies suggesting separate brain systems for perceptual, syntactic, and semantic processing, NSR implements analogous separate modules of neural perception, syntactic parsing, and semantic reasoning, which are jointly learned by a deduction-abduction algorithm. We prove that NSR is expressive enough to model various sequence-to-sequence tasks. Superior systematic generalization is achieved via the inductive biases of equivariance and recursiveness embedded in NSR. In experiments, NSR achieves state-of-the-art performance in three benchmarks from different domains: SCAN for semantic parsing, PCFG for string manipulation, and HINT for arithmetic reasoning. Specifically, NSR achieves 100% generalization accuracy on SCAN and PCFG and outperforms state-of-the-art models on HINT by about 23%. Our NSR demonstrates stronger generalization than pure neural networks due to its symbolic representation and inductive biases. NSR also demonstrates better transferability than existing neural-symbolic approaches due to less domain-specific knowledge required.

  • 6 authors
·
Oct 4, 2022

HAGE: Harnessing Agentic Memory via RL-Driven Weighted Graph Evolution

Memory retrieval in agentic large language model (LLM) systems is often treated as a static lookup problem, relying on flat vector search or fixed binary relational graphs. However, fixed graph structures cannot capture the varying strength, confidence, and query-dependent relevance of relationships between events. In this paper, we propose HAGE, a weighted multi-relational memory framework that reconceptualizes retrieval as sequential, query-conditioned traversal over a unified relational memory graph. Memory is organized as relation-specific graph views over shared memory nodes, where each edge is associated with a trainable relation feature vector encoding multiple relational signals. Given a query, an LLM-based classifier identifies the relational intent, and a routing network dynamically modulates the corresponding dimensions of the edge embedding. Traversal scores are computed via a learned combination of semantic similarity and these query-conditioned edge representations. This allows memory traversal to prioritize high-utility relational paths while softly suppressing noisy or weakly relevant connections. Beyond adaptive traversal, HAGE further introduces a reinforcement learning-based training framework that jointly optimizes routing behavior and edge representations using downstream tasks. Finally, empirical results demonstrate improved long-horizon reasoning accuracy and a favorable accuracy-efficiency trade-off compared to state-of-the-art agentic memory systems. Our code is available at https://github.com/FredJiang0324/HAGE_MVPReview.

  • 5 authors
·
May 10 1

Differentiable Reasoning on Large Knowledge Bases and Natural Language

Reasoning with knowledge expressed in natural language and Knowledge Bases (KBs) is a major challenge for Artificial Intelligence, with applications in machine reading, dialogue, and question answering. General neural architectures that jointly learn representations and transformations of text are very data-inefficient, and it is hard to analyse their reasoning process. These issues are addressed by end-to-end differentiable reasoning systems such as Neural Theorem Provers (NTPs), although they can only be used with small-scale symbolic KBs. In this paper we first propose Greedy NTPs (GNTPs), an extension to NTPs addressing their complexity and scalability limitations, thus making them applicable to real-world datasets. This result is achieved by dynamically constructing the computation graph of NTPs and including only the most promising proof paths during inference, thus obtaining orders of magnitude more efficient models. Then, we propose a novel approach for jointly reasoning over KBs and textual mentions, by embedding logic facts and natural language sentences in a shared embedding space. We show that GNTPs perform on par with NTPs at a fraction of their cost while achieving competitive link prediction results on large datasets, providing explanations for predictions, and inducing interpretable models. Source code, datasets, and supplementary material are available online at https://github.com/uclnlp/gntp.

  • 5 authors
·
Dec 16, 2019

Hypergraph as Language

Large language models (LLMs) have recently shown strong potential in modeling relational structures. However, existing approaches remain fundamentally graph-centric: they focus on processing pairwise graph structures into tokens that LLMs can understand. In contrast, many real-world relational patterns do not naturally conform to the pairwise-edge assumption, and are better modeled as high-order associations in hypergraphs. For hypergraph structures, existing methods often fail to preserve the native semantics that multiple objects are jointly connected by the same high-order relation, limiting their ability to exploit complex structures. To address this limitation, we put forth the "Hypergraph as Language" perspective and propose Hyper-Align, a hypergraph-native alignment framework for large language models. Hyper-Align compiles the query-object-centered hypergraph context into hypergraph tokens directly consumable by a base LLM. Specifically, we introduce Hypergraph Incidence Detail Template with Overview (HIDT-O), which serializes high-order association structures into a fixed-shape hybrid template combining local incidence details and overview-level summaries. We then design a Hypergraph Incidence Projector (HIP), which maps native high-order incidence structures into the LLM token space through explicit semantic-structural decoupling and bidirectional message passing between vertices and hyperedges. We further define a concrete Hypergraph-as-Language input protocol, which jointly feeds hypergraph tokens and textual prompts into a frozen base LLM, supporting both vertex-level and hyperedge-level tasks under a unified question-answering paradigm. To systematically evaluate different methods in hypergraph structural modeling, we introduce HyperAlign-Bench. Extensive experiments show that Hyper-Align significantly outperforms existing methods across in-domain and zero-shot evaluations.

  • 7 authors
·
May 20

Synthetic Visual Genome

Reasoning over visual relationships-spatial, functional, interactional, social, etc.-is considered to be a fundamental component of human cognition. Yet, despite the major advances in visual comprehension in multimodal language models (MLMs), precise reasoning over relationships and their generations remains a challenge. We introduce ROBIN: an MLM instruction-tuned with densely annotated relationships capable of constructing high-quality dense scene graphs at scale. To train ROBIN, we curate SVG, a synthetic scene graph dataset by completing the missing relations of selected objects in existing scene graphs using a teacher MLM and a carefully designed filtering process to ensure high-quality. To generate more accurate and rich scene graphs at scale for any image, we introduce SG-EDIT: a self-distillation framework where GPT-4o further refines ROBIN's predicted scene graphs by removing unlikely relations and/or suggesting relevant ones. In total, our dataset contains 146K images and 5.6M relationships for 2.6M objects. Results show that our ROBIN-3B model, despite being trained on less than 3 million instances, outperforms similar-size models trained on over 300 million instances on relationship understanding benchmarks, and even surpasses larger models up to 13B parameters. Notably, it achieves state-of-the-art performance in referring expression comprehension with a score of 88.9, surpassing the previous best of 87.4. Our results suggest that training on the refined scene graph data is crucial to maintaining high performance across diverse visual reasoning task.

  • 12 authors
·
Jun 9, 2025

Enhancing Graph Representations with Neighborhood-Contextualized Message-Passing

Graph neural networks (GNNs) have become an indispensable tool for analyzing relational data. In the literature, classical GNNs may be classified into three variants: convolutional, attentional, and message-passing. While the standard message-passing variant is highly expressive, its typical pair-wise messages nevertheless only consider the features of the center node and each neighboring node individually. This design fails to incorporate the rich contextual information contained within the broader local neighborhood, potentially hindering its ability to learn complex relationships within the entire set of neighboring nodes. To address this limitation, this work first formalizes the concept of neighborhood-contextualization, rooted in a key property of the attentional variant. This then serves as the foundation for generalizing the message-passing variant to the proposed neighborhood-contextualized message-passing (NCMP) framework. To demonstrate its utility, a simple, practical, and efficient method to parametrize and operationalize NCMP is presented, leading to the development of the proposed Soft-Isomorphic Neighborhood-Contextualized Graph Convolution Network (SINC-GCN). A preliminary analysis on a synthetic binary node classification problem then underscores both the expressivity and efficiency of the proposed GNN architecture. Overall, the paper lays the foundation for the novel NCMP framework as a practical path toward further enhancing the graph representational power of classical GNNs.

  • 1 authors
·
Nov 14, 2025

Mixing Mechanisms: How Language Models Retrieve Bound Entities In-Context

A key component of in-context reasoning is the ability of language models (LMs) to bind entities for later retrieval. For example, an LM might represent "Ann loves pie" by binding "Ann" to "pie", allowing it to later retrieve "Ann" when asked "Who loves pie?" Prior research on short lists of bound entities found strong evidence that LMs implement such retrieval via a positional mechanism, where "Ann" is retrieved based on its position in context. In this work, we find that this mechanism generalizes poorly to more complex settings; as the number of bound entities in context increases, the positional mechanism becomes noisy and unreliable in middle positions. To compensate for this, we find that LMs supplement the positional mechanism with a lexical mechanism (retrieving "Ann" using its bound counterpart "pie") and a reflexive mechanism (retrieving "Ann" through a direct pointer). Through extensive experiments on nine models and ten binding tasks, we uncover a consistent pattern in how LMs mix these mechanisms to drive model behavior. We leverage these insights to develop a causal model combining all three mechanisms that estimates next token distributions with 95% agreement. Finally, we show that our model generalizes to substantially longer inputs of open-ended text interleaved with entity groups, further demonstrating the robustness of our findings in more natural settings. Overall, our study establishes a more complete picture of how LMs bind and retrieve entities in-context.

tau Tel Aviv University
·
Oct 7, 2025 2

In-situ graph reasoning and knowledge expansion using Graph-PReFLexOR

The pursuit of automated scientific discovery has fueled progress from symbolic logic to modern AI, forging new frontiers in reasoning and pattern recognition. Transformers function as potential systems, where every possible relationship remains latent potentiality until tasks impose constraints, akin to measurement. Yet, refining their sampling requires more than probabilistic selection: solutions must conform to specific structures or rules, ensuring consistency and the invocation of general principles. We present Graph-PReFLexOR (Graph-based Preference-based Recursive Language Modeling for Exploratory Optimization of Reasoning), a framework that combines graph reasoning with symbolic abstraction to dynamically expand domain knowledge. Inspired by reinforcement learning, Graph-PReFLexOR defines reasoning as a structured mapping, where tasks yield knowledge graphs, abstract patterns, and ultimately, final answers. Inspired by category theory, it encodes concepts as nodes and their relationships as edges, supporting hierarchical inference and adaptive learning through isomorphic representations. Demonstrations include hypothesis generation, materials design, and creative reasoning, such as discovering relationships between mythological concepts like 'thin places' with materials science. We propose a 'knowledge garden growth' strategy that integrates insights across domains, promoting interdisciplinary connections. Results with a 3-billion-parameter Graph-PReFLexOR model show superior reasoning depth and adaptability, underscoring the potential for transparent, multidisciplinary AI-driven discovery. It lays the groundwork for general autonomous reasoning solutions.

  • 1 authors
·
Jan 14, 2025 2