Typical methods include Since the dynamic characteristics of knowledge graphs, many inductive conventional KGEs [3, 30, 32, 40], GNN-based KGEs [28, 33], and knowledge graph representation learning (KGRL) works rule-based KGEs [16, 44]. However, the world is dynamic, where have been proposed in recent years, focusing on enabling prediction new entities are continuously added to KGs, and new KGs are continuously over new entities. NeuralKG-ind is the first library of inductive constructed. The traditional KGRL methods, which learn KGRL as an important update of NeuralKG library. It includes standardized embeddings for a fixed set of entities, fail to generalize to new elements.

Most real-world knowledge graphs, including Wikidata, DBpedia, and Yago are incomplete. Answering queries on such incomplete graphs is an important, but challenging problem. Recently, a number of approaches, including complex query decomposition (CQD), have been proposed to answer complex, multi-hop queries with conjunctions and disjunctions on such graphs. However, all state-of-the-art approaches only consider graphs consisting of entities and relations, neglecting literal values. In this paper, we propose LitCQD -- an approach to answer complex, multi-hop queries where both the query and the knowledge graph can contain numeric literal values: LitCQD can answer queries having numerical answers or having entity answers satisfying numerical constraints. For example, it allows to query (1)~persons living in New York having a certain age, and (2)~the average age of persons living in New York. We evaluate LitCQD on query types with and without literal values. To evaluate LitCQD, we generate complex, multi-hop queries and their expected answers on a version of the FB15k-237 dataset that was extended by literal values.

Entity alignment (EA) which links equivalent entities across different knowledge graphs (KGs) plays a crucial role in knowledge fusion. In recent years, graph neural networks (GNNs) have been successfully applied in many embedding-based EA methods. However, existing GNN-based methods either suffer from the structural heterogeneity issue that especially appears in the real KG distributions or ignore the heterogeneous representation learning for unseen (unlabeled) entities, which would lead the model to overfit on few alignment seeds (i.e., training data) and thus cause unsatisfactory alignment performance. To enhance the EA ability, we propose GAEA, a novel EA approach based on graph augmentation. In this model, we design a simple Entity-Relation (ER) Encoder to generate latent representations for entities via jointly modeling comprehensive structural information and rich relation semantics. Moreover, we use graph augmentation to create two graph views for margin-based alignment learning and contrastive entity representation learning, thus mitigating structural heterogeneity and further improving the model's alignment performance. Extensive experiments conducted on benchmark datasets demonstrate the effectiveness of our method. Our codes are available at https://github.com/Xiefeng69/GAEA.

Lexical ambiguity presents a profound and enduring challenge to the language sciences. Researchers for decades have grappled with the problem of how language users learn, represent and process words with more than one meaning. Our work offers new insight into psychological understanding of lexical ambiguity through a series of simulations that capitalise on recent advances in contextual language models. These models have no grounded understanding of the meanings of words at all; they simply learn to predict words based on the surrounding context provided by other words. Yet, our analyses show that their representations capture fine-grained meaningful distinctions between unambiguous, homonymous, and polysemous words that align with lexicographic classifications and psychological theorising. These findings provide quantitative support for modern psychological conceptualisations of lexical ambiguity and raise new challenges for understanding of the way that contextual information shapes the meanings of words across different timescales.

Background: Computational drug repurposing is a cost- and time-efficient approach that aims to identify new therapeutic targets or diseases (indications) of existing drugs/compounds. It is especially critical for emerging and/or orphan diseases due to its cheaper investment and shorter research cycle compared with traditional wet-lab drug discovery approaches. However, the underlying mechanisms of action (MOAs) between repurposed drugs and their target diseases remain largely unknown, which is still a main obstacle for computational drug repurposing methods to be widely adopted in clinical settings. Results: In this work, we propose KGML-xDTD: a Knowledge Graph-based Machine Learning framework for explainably predicting Drugs Treating Diseases. It is a two-module framework that not only predicts the treatment probabilities between drugs/compounds and diseases but also biologically explains them via knowledge graph (KG) path-based, testable mechanisms of action (MOAs). We leverage knowledge-and-publication based information to extract biologically meaningful "demonstration paths" as the intermediate guidance in the Graph-based Reinforcement Learning (GRL) path-finding process. Comprehensive experiments and case study analyses show that the proposed framework can achieve state-of-the-art performance in both predictions of drug repurposing and recapitulation of human-curated drug MOA paths. Conclusions: KGML-xDTD is the first model framework that can offer KG-path explanations for drug repurposing predictions by leveraging the combination of prediction outcomes and existing biological knowledge and publications. We believe it can effectively reduce "black-box" concerns and increase prediction confidence for drug repurposing based on predicted path-based explanations, and further accelerate the process of drug discovery for emerging diseases.

Geometric relational embeddings map relational data as geometric objects that combine vector information suitable for machine learning and structured/relational information for structured/relational reasoning, typically in low dimensions. Their preservation of relational structures and their appealing properties and interpretability have led to their uptake for tasks such as knowledge graph completion, ontology and hierarchy reasoning, logical query answering, and hierarchical multi-label classification. We survey methods that underly geometric relational embeddings and categorize them based on (i) the embedding geometries that are used to represent the data; and (ii) the relational reasoning tasks that they aim to improve. We identify the desired properties (i.e., inductive biases) of each kind of embedding and discuss some potential future work.

Negative sampling (NS) is widely used in knowledge graph embedding (KGE), which aims to generate negative triples to make a positive-negative contrast during training. However, existing NS methods are unsuitable when multi-modal information is considered in KGE models. They are also inefficient due to their complex design. In this paper, we propose Modality-Aware Negative Sampling (MANS) for multi-modal knowledge graph embedding (MMKGE) to address the mentioned problems. MANS could align structural and visual embeddings for entities in KGs and learn meaningful embeddings to perform better in multi-modal KGE while keeping lightweight and efficient. Empirical results on two benchmarks demonstrate that MANS outperforms existing NS methods. Meanwhile, we make further explorations about MANS to confirm its effectiveness.

Embedding knowledge graphs (KGs) for multi-hop logical reasoning is a challenging problem due to massive and complicated structures in many KGs. Recently, many promising works projected entities and queries into a geometric space to efficiently find answers. However, it remains challenging to model the negation and union operator. The negation operator has no strict boundaries, which generates overlapped embeddings and leads to obtaining ambiguous answers. An additional limitation is that the union operator is non-closure, which undermines the model to handle a series of union operators. To address these problems, we propose a novel probabilistic embedding model, namely Gamma Embeddings (GammaE), for encoding entities and queries to answer different types of FOL queries on KGs. We utilize the linear property and strong boundary support of the Gamma distribution to capture more features of entities and queries, which dramatically reduces model uncertainty. Furthermore, GammaE implements the Gamma mixture method to design the closed union operator. The performance of GammaE is validated on three large logical query datasets. Experimental results show that GammaE significantly outperforms state-of-the-art models on public benchmarks.

Background : Knowledge is evolving over time, often as a result of new discoveries or changes in the adopted methods of reasoning. Also, new facts or evidence may become available, leading to new understandings of complex phenomena. This is particularly true in the biomedical field, where scientists and physicians are constantly striving to find new methods of diagnosis, treatment and eventually cure. Knowledge Graphs (KGs) offer a real way of organizing and retrieving the massive and growing amount of biomedical knowledge. Objective : We propose an end-to-end approach for knowledge extraction and analysis from biomedical clinical notes using the Bidirectional Encoder Representations from Transformers (BERT) model and Conditional Random Field (CRF) layer. Methods : The approach is based on knowledge graphs, which can effectively process abstract biomedical concepts such as relationships and interactions between medical entities. Besides offering an intuitive way to visualize these concepts, KGs can solve more complex knowledge retrieval problems by simplifying them into simpler representations or by transforming the problems into representations from different perspectives. We created a biomedical Knowledge Graph using using Natural Language Processing models for named entity recognition and relation extraction. The generated biomedical knowledge graphs (KGs) are then used for question answering. Results : The proposed framework can successfully extract relevant structured information with high accuracy (90.7% for Named-entity recognition (NER), 88% for relation extraction (RE)), according to experimental findings based on real-world 505 patient biomedical unstructured clinical notes. Conclusions : In this paper, we propose a novel end-to-end system for the construction of a biomedical knowledge graph from clinical textual using a variation of BERT models.

Large-scale pre-trained models have been known that they are transferable, and they generalize well on the unseen dataset. Recently, multimodal pre-trained models such as CLIP show significant performance improvement in diverse experiments. However, when the labeled dataset is limited, the generalization of a new dataset or domain is still challenging. To improve the generalization performance on few-shot learning, there have been diverse efforts, such as prompt learning and adapter. However, the current few-shot adaptation methods are not interpretable, and they require a high computation cost for adaptation. In this study, we propose a new method, robust prompt learning with knowledge graph (RPLKG). Based on the knowledge graph, we automatically design diverse interpretable and meaningful prompt sets. Our model obtains cached embeddings of prompt sets after one forwarding from a large pre-trained model. After that, model optimizes the prompt selection processes with GumbelSoftmax. In this way, our model is trained using relatively little memory and learning time. Also, RPLKG selects the optimal interpretable prompt automatically, depending on the dataset. In summary, RPLKG is i) interpretable, ii) requires small computation resources, and iii) easy to incorporate prior human knowledge. To validate the RPLKG, we provide comprehensive experimental results on few-shot learning, domain generalization and new class generalization setting. RPLKG shows a significant performance improvement compared to zero-shot learning and competitive performance against several prompt learning methods using much lower resources.