Logical reasoning over Knowledge Graphs (KGs) is a fundamental technique that can provide efficient querying mechanism over large and incomplete databases. Current approaches employ spatial geometries such as boxes to learn query representations that encompass the answer entities and model the logical operations of projection and intersection. However, their geometry is restrictive and leads to non-smooth strict boundaries, which further results in ambiguous answer entities. Furthermore, previous works propose transformation tricks to handle unions which results in non-closure and, thus, cannot be chained in a stream. In this paper, we propose a Probabilistic Entity Representation Model (PERM) to encode entities as a Multivariate Gaussian density with mean and covariance parameters to capture its semantic position and smooth decision boundary, respectively. Additionally, we also define the closed logical operations of projection, intersection, and union that can be aggregated using an end-to-end objective function. On the logical query reasoning problem, we demonstrate that the proposed PERM significantly outperforms the state-of-the-art methods on various public benchmark KG datasets on standard evaluation metrics. We also evaluate PERM's competence on a COVID-19 drug-repurposing case study and show that our proposed work is able to recommend drugs with substantially better F1 than current methods. Finally, we demonstrate the working of our PERM's query answering process through a low-dimensional visualization of the Gaussian representations.
Query embedding (QE) -- which aims to embed entities and first-order logical (FOL) queries in low-dimensional spaces -- has shown great power in multi-hop reasoning over knowledge graphs. Recently, embedding entities and queries with geometric shapes becomes a promising direction, as geometric shapes can naturally represent answer sets of queries and logical relationships among them. However, existing geometry-based models have difficulty in modeling queries with negation, which significantly limits their applicability. To address this challenge, we propose a novel query embedding model, namely Cone Embeddings (ConE), which is the first geometry-based QE model that can handle all the FOL operations, including conjunction, disjunction, and negation. Specifically, ConE represents entities and queries as Cartesian products of two-dimensional cones, where the intersection and union of cones naturally model the conjunction and disjunction operations. By further noticing that the closure of complement of cones remains cones, we design geometric complement operators in the embedding space for the negation operations. Experiments demonstrate that ConE significantly outperforms existing state-of-the-art methods on benchmark datasets.
Constructing large-scaled medical knowledge graphs can significantly boost healthcare applications for medical surveillance, bring much attention from recent research. An essential step in constructing large-scale MKG is extracting information from medical reports. Recently, information extraction techniques have been proposed and show promising performance in biomedical information extraction. However, these methods only consider limited types of entity and relation due to the noisy biomedical text data with complex entity correlations. Thus, they fail to provide enough information for constructing MKGs and restrict the downstream applications. To address this issue, we propose Biomedical Information Extraction, a hybrid neural network to extract relations from biomedical text and unstructured medical reports. Our model utilizes a multi-head attention enhanced graph convolutional network to capture the complex relations and context information while resisting the noise from the data. We evaluate our model on two major biomedical relationship extraction tasks, chemical-disease relation and chemical-protein interaction, and a cross-hospital pan-cancer pathology report corpus. The results show that our method achieves superior performance than baselines. Furthermore, we evaluate the applicability of our method under a transfer learning setting and show that BioIE achieves promising performance in processing medical text from different formats and writing styles.
The paper utilizes the graph embeddings generated for entities of a large biomedical database to perform link prediction to capture various new relationships among different entities. A novel node similarity measure is proposed that utilizes the graph embeddings and link prediction scores to find similarity scores among various drugs which can be used by the medical experts to recommend alternative drugs to avoid side effects from original one. Utilizing machine learning on knowledge graph for drug similarity and recommendation will be less costly and less time consuming with higher scalability as compared to traditional biomedical methods due to the dependency on costly medical equipment and experts of the latter ones.
The initial adoption of knowledge graphs by Google and later by big companies has increased their adoption and popularity. In this paper we present a formal model for three different types of knowledge graphs which we call RDF-based graphs, property graphs and wikibase graphs. In order to increase the quality of Knowledge Graphs, several approaches have appeared to describe and validate their contents. Shape Expressions (ShEx) has been proposed as concise language for RDF validation. We give a brief introduction to ShEx and present two extensions that can also be used to describe and validate property graphs (PShEx) and wikibase graphs (WShEx). One problem of knowledge graphs is the large amount of data they contain, which jeopardizes their practical application. In order to palliate this problem, one approach is to create subsets of those knowledge graphs for some domains. We propose the following approaches to generate those subsets: Entity-matching, simple matching, ShEx matching, ShEx plus Slurp and ShEx plus Pregel which are based on declaratively defining the subsets by either matching some content or by Shape Expressions. The last approach is based on a novel validation algorithm for ShEx based on the Pregel algorithm that can handle big data graphs and has been implemented on Apache Spark GraphX.
Increasing amounts of freely available data both in textual and relational form offers exploration of richer document representations, potentially improving the model performance and robustness. An emerging problem in the modern era is fake news detection -- many easily available pieces of information are not necessarily factually correct, and can lead to wrong conclusions or are used for manipulation. In this work we explore how different document representations, ranging from simple symbolic bag-of-words, to contextual, neural language model-based ones can be used for efficient fake news identification. One of the key contributions is a set of novel document representation learning methods based solely on knowledge graphs, i.e. extensive collections of (grounded) subject-predicate-object triplets. We demonstrate that knowledge graph-based representations already achieve competitive performance to conventionally accepted representation learners. Furthermore, when combined with existing, contextual representations, knowledge graph-based document representations can achieve state-of-the-art performance. To our knowledge this is the first larger-scale evaluation of how knowledge graph-based representations can be systematically incorporated into the process of fake news classification.
Inferring missing facts in temporal knowledge graphs is a critical task and has been widely explored. Extrapolation in temporal reasoning tasks is more challenging and gradually attracts the attention of researchers since no direct history facts for prediction. Previous works attempted to apply evolutionary representation learning to solve the extrapolation problem. However, these techniques do not explicitly leverage various time-aware attribute representations, i.e. the reasoning performance is significantly affected by the history length. To alleviate the time dependence when reasoning future missing facts, we propose a memory-triggered decision-making (MTDM) network, which incorporates transient memories, long-short-term memories, and deep memories. Specifically, the transient learning network considers transient memories as a static knowledge graph, and the time-aware recurrent evolution network learns representations through a sequence of recurrent evolution units from long-short-term memories. Each evolution unit consists of a structural encoder to aggregate edge information, a time encoder with a gating unit to update attribute representations of entities. MTDM utilizes the crafted residual multi-relational aggregator as the structural encoder to solve the multi-hop coverage problem. We also introduce the dissolution learning constraint for better understanding the event dissolution process. Extensive experiments demonstrate the MTDM alleviates the history dependence and achieves state-of-the-art prediction performance. Moreover, compared with the most advanced baseline, MTDM shows a faster convergence speed and training speed.
Relation reasoning in knowledge graphs (KGs) aims at predicting missing relations in incomplete triples, whereas the dominant paradigm is learning the embeddings of relations and entities, which is limited to a transductive setting and has restriction on processing unseen entities in an inductive situation. Previous inductive methods are scalable and consume less resource. They utilize the structure of entities and triples in subgraphs to own inductive ability. However, in order to obtain better reasoning results, the model should acquire entity-independent relational semantics in latent rules and solve the deficient supervision caused by scarcity of rules in subgraphs. To address these issues, we propose a novel graph convolutional network (GCN)-based approach for interpretable inductive reasoning with relational path contrast, named RPC-IR. RPC-IR firstly extracts relational paths between two entities and learns representations of them, and then innovatively introduces a contrastive strategy by constructing positive and negative relational paths. A joint training strategy considering both supervised and contrastive information is also proposed. Comprehensive experiments on three inductive datasets show that RPC-IR achieves outstanding performance comparing with the latest inductive reasoning methods and could explicitly represent logical rules for interpretability.
Graph neural networks (GNNs) have become the standard learning architectures for graphs. GNNs have been applied to numerous domains ranging from quantum chemistry, recommender systems to knowledge graphs and natural language processing. A major issue with arbitrary graphs is the absence of canonical positional information of nodes, which decreases the representation power of GNNs to distinguish e.g. isomorphic nodes and other graph symmetries. An approach to tackle this issue is to introduce Positional Encoding (PE) of nodes, and inject it into the input layer, like in Transformers. Possible graph PE are Laplacian eigenvectors. In this work, we propose to decouple structural and positional representations to make easy for the network to learn these two essential properties. We introduce a novel generic architecture which we call LSPE (Learnable Structural and Positional Encodings). We investigate several sparse and fully-connected (Transformer-like) GNNs, and observe a performance increase for molecular datasets, from 1.79% up to 64.14% when considering learnable PE for both GNN classes.
We present a simple linear programming (LP) based method to learn compact and interpretable sets of rules encoding the facts in a knowledge graph (KG) and use these rules to solve the KG completion problem. Our LP model chooses a set of rules of bounded complexity from a list of candidate first-order logic rules and assigns weights to them. The complexity bound is enforced via explicit constraints. We combine simple rule generation heuristics with our rule selection LP to obtain predictions with accuracy comparable to state-of-the-art codes, even while generating much more compact rule sets. Furthermore, when we take as input rules generated by other codes, we often improve interpretability by reducing the number of chosen rules, while maintaining accuracy.
Global datasphere is increasing fast, and it is expected to reach 175 Zettabytes by 20251 . However, most of the content is unstructured and is not understandable by machines. Structuring this data into a knowledge graph enables multitudes of intelligent applications such as deep question answering, recommendation systems, semantic search, etc. The knowledge graph is an emerging technology that allows logical reasoning and uncovers new insights using content along with the context. Thereby, it provides necessary syntax and reasoning semantics that enable machines to solve complex healthcare, security, financial institutions, economics, and business problems. As an outcome, enterprises are putting their effort into constructing and maintaining knowledge graphs to support various downstream applications. Manual approaches are too expensive. Automated schemes can reduce the cost of building knowledge graphs up to 15-250 times. This paper critiques state-of-the-art automated techniques to produce knowledge graphs of near-human quality autonomously. Additionally, it highlights different research issues that need to be addressed to deliver high-quality knowledge graphs
The common practice for training commonsense models has gone from-human-to-corpus-to-machine: humans author commonsense knowledge graphs in order to train commonsense models. In this work, we investigate an alternative, from-machine-to-corpus-to-machine: general language models author these commonsense knowledge graphs to train commonsense models. Our study leads to a new framework, Symbolic Knowledge Distillation. As with prior art in Knowledge Distillation (Hinton et al., 2015), our approach uses larger models to teach smaller models. A key difference is that we distill knowledge symbolically-as text-in addition to the neural model. We also distill only one aspect-the commonsense of a general language model teacher, allowing the student to be a different type, a commonsense model. Altogether, we show that careful prompt engineering and a separately trained critic model allow us to selectively distill high-quality causal commonsense from GPT-3, a general language model. Empirical results demonstrate that, for the first time, a human-authored commonsense knowledge graph is surpassed by our automatically distilled variant in all three criteria: quantity, quality, and diversity. In addition, it results in a neural commonsense model that surpasses the teacher model's commonsense capabilities despite its 100x smaller size. We apply this to the ATOMIC resource, and share our new symbolic knowledge graph and commonsense models.
Network representation learning (NRL) advances the conventional graph mining of social networks, knowledge graphs, and complex biomedical and physics information networks. Over dozens of network representation learning algorithms have been reported in the literature. Most of them focus on learning node embeddings for homogeneous networks, but they differ in the specific encoding schemes and specific types of node semantics captured and used for learning node embedding. This survey paper reviews the design principles and the different node embedding techniques for network representation learning over homogeneous networks. To facilitate the comparison of different node embedding algorithms, we introduce a unified reference framework to divide and generalize the node embedding learning process on a given network into preprocessing steps, node feature extraction steps and node embedding model training for a NRL task such as link prediction and node clustering. With this unifying reference framework, we highlight the representative methods, models, and techniques used at different stages of the node embedding model learning process. This survey not only helps researchers and practitioners to gain an in-depth understanding of different network representation learning techniques but also provides practical guidelines for designing and developing the next generation of network representation learning algorithms and systems.
Entity Alignment (EA) aims to match equivalent entities across different Knowledge Graphs (KGs) and is an essential step of KG fusion. Current mainstream methods -- neural EA models -- rely on training with seed alignment, i.e., a set of pre-aligned entity pairs which are very costly to annotate. In this paper, we devise a novel Active Learning (AL) framework for neural EA, aiming to create highly informative seed alignment to obtain more effective EA models with less annotation cost. Our framework tackles two main challenges encountered when applying AL to EA: (1) How to exploit dependencies between entities within the AL strategy. Most AL strategies assume that the data instances to sample are independent and identically distributed. However, entities in KGs are related. To address this challenge, we propose a structure-aware uncertainty sampling strategy that can measure the uncertainty of each entity as well as its impact on its neighbour entities in the KG. (2) How to recognise entities that appear in one KG but not in the other KG (i.e., bachelors). Identifying bachelors would likely save annotation budget. To address this challenge, we devise a bachelor recognizer paying attention to alleviate the effect of sampling bias. Empirical results show that our proposed AL strategy can significantly improve sampling quality with good generality across different datasets, EA models and amount of bachelors.
The task of generating rich and fluent narratives that aptly describe the characteristics, trends, and anomalies of time-series data is invaluable to the sciences (geology, meteorology, epidemiology) or finance (trades, stocks, or sales and inventory). The efforts for time-series narration hitherto are domain-specific and use predefined templates that offer consistency but lead to mechanical narratives. We present TCube (Time-series-to-text), a domain-agnostic neural framework for time-series narration, that couples the representation of essential time-series elements in the form of a dense knowledge graph and the translation of said knowledge graph into rich and fluent narratives through the transfer-learning capabilities of PLMs (Pre-trained Language Models). TCube's design primarily addresses the challenge that lies in building a neural framework in the complete paucity of annotated training data for time-series. The design incorporates knowledge graphs as an intermediary for the representation of essential time-series elements which can be linearized for textual translation. To the best of our knowledge, TCube is the first investigation of the use of neural strategies for time-series narration. Through extensive evaluations, we show that TCube can improve the lexical diversity of the generated narratives by up to 65.38% while still maintaining grammatical integrity. The practicality and deployability of TCube is further validated through an expert review (n=21) where 76.2% of participating experts wary of auto-generated narratives favored TCube as a deployable system for time-series narration due to its richer narratives. Our code-base, models, and datasets, with detailed instructions for reproducibility is publicly hosted at https://github.com/Mandar-Sharma/TCube.
The construction and application of knowledge graphs have seen a rapid increase across many disciplines in recent years. Additionally, the problem of uncovering relationships between developments in the COVID-19 pandemic and social media behavior is of great interest to researchers hoping to curb the spread of the disease. In this paper we present a knowledge graph constructed from COVID-19 related tweets in the Los Angeles area, supplemented with federal and state policy announcements and disease spread statistics. By incorporating dates, topics, and events as entities, we construct a knowledge graph that describes the connections between these useful information. We use natural language processing and change point analysis to extract tweet-topic, tweet-date, and event-date relations. Further analysis on the constructed knowledge graph provides insight into how tweets reflect public sentiments towards COVID-19 related topics and how changes in these sentiments correlate with real-world events.
CaLiGraph is a large-scale cross-domain knowledge graph generated from Wikipedia by exploiting the category system, list pages, and other list structures in Wikipedia, containing more than 15 million typed entities and around 10 million relation assertions. Other than knowledge graphs such as DBpedia and YAGO, whose ontologies are comparably simplistic, CaLiGraph also has a rich ontology, comprising more than 200,000 class restrictions. Those two properties - a large A-box and a rich ontology - make it an interesting challenge for benchmarking reasoners. In this paper, we show that a reasoning task which is particularly relevant for CaLiGraph, i.e., the materialization of owl:hasValue constraints into assertions between individuals and between individuals and literals, is insufficiently supported by available reasoning systems. We provide differently sized benchmark subsets of CaLiGraph, which can be used for performance analysis of reasoning systems.
Inferring the substitutable and complementary products for a given product is an essential and fundamental concern for the recommender system. To achieve this, existing approaches take advantage of the knowledge graphs to learn more evidences for inference, whereas they often suffer from invalid reasoning for lack of elegant decision making strategies. Therefore, we propose a novel Knowledge-Aware Path Reasoning (KAPR) model which leverages the dynamic policy network to make explicit reasoning over knowledge graphs, for inferring the substitutable and complementary relationships. Our contributions can be highlighted as three aspects. Firstly, we model this inference scenario as a Markov Decision Process in order to accomplish a knowledge-aware path reasoning over knowledge graphs. Secondly,we integrate both structured and unstructured knowledge to provide adequate evidences for making accurate decision-making. Thirdly, we evaluate our model on a series of real-world datasets, achieving competitive performance compared with state-of-the-art approaches. Our code is released on https://gitee.com/yangzijing flower/kapr/tree/master.
Question Answering (QA) has been a long-standing research topic in AI and NLP fields, and a wealth of studies have been conducted to attempt to equip QA systems with human-level reasoning capability. To approximate the complicated human reasoning process, state-of-the-art QA systems commonly use pre-trained language models (LMs) to access knowledge encoded in LMs together with elaborately designed modules based on Graph Neural Networks (GNNs) to perform reasoning over knowledge graphs (KGs). However, many problems remain open regarding the reasoning functionality of these GNN-based modules. Can these GNN-based modules really perform a complex reasoning process? Are they under- or over-complicated for QA? To open the black box of GNN and investigate these problems, we dissect state-of-the-art GNN modules for QA and analyze their reasoning capability. We discover that even a very simple graph neural counter can outperform all the existing GNN modules on CommonsenseQA and OpenBookQA, two popular QA benchmark datasets which heavily rely on knowledge-aware reasoning. Our work reveals that existing knowledge-aware GNN modules may only carry out some simple reasoning such as counting. It remains a challenging open problem to build comprehensive reasoning modules for knowledge-powered QA.
In recent years, algebraic topology and its modern development, the theory of persistent homology, has shown great potential in graph representation learning. In this paper, based on the mathematics of algebraic topology, we propose a novel solution for inductive relation prediction, an important learning task for knowledge graph completion. To predict the relation between two entities, one can use the existence of rules, namely a sequence of relations. Previous works view rules as paths and primarily focus on the searching of paths between entities. The space of rules is huge, and one has to sacrifice either efficiency or accuracy. In this paper, we consider rules as cycles and show that the space of cycles has a unique structure based on the mathematics of algebraic topology. By exploring the linear structure of the cycle space, we can improve the searching efficiency of rules. We propose to collect cycle bases that span the space of cycles. We build a novel GNN framework on the collected cycles to learn the representations of cycles, and to predict the existence/non-existence of a relation. Our method achieves state-of-the-art performance on benchmarks.