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1. DEER: Descriptive Knowledge Graph for Explaining Entity Relationships

   Jie Huang, Kerui Zhu (January 2022, Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing)

   We propose DEER (Descriptive Knowledge Graph for Explaining Entity Relationships) - an open and informative form of modeling entity relationships. In DEER, relationships between entities are represented by free-text relation descriptions. For instance, the relationship between entities of machine learning and algorithm can be represented as “Machine learning explores the study and construction of algorithms that can learn from and make predictions on data.” To construct DEER, we propose a self-supervised learning method to extract relation descriptions with the analysis of dependency patterns and generate relation descriptions with a transformer-based relation description synthesizing model, where no human labeling is required. Experiments demonstrate that our system can extract and generate high-quality relation descriptions for explaining entity relationships. The results suggest that we can build an open and informative knowledge graph without human annotation. 

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2. Automatic Extraction of Protein-protein Interactions using Grammatical Relationship Graph

   Yu, Kaixian; Lung, Pei-Yau; Zhao, Tingting; Zhao, Peixiang; Tseng, Yan-Yuan; Zhang, Jinfeng (January 2018, BMC medical informatics and decision making)

   Background: Relationships between bio-entities (genes, proteins, diseases, etc.) constitute a significant part of our knowledge. Most of this information is documented as unstructured text in different forms, such as books, articles and on-line pages. Automatic extraction of such information and storing it in structured form could help researchers more easily access such information and also make it possible to incorporate it in advanced integrative analysis. In this study, we developed a novel approach to extract bio-entity relationships information using Nature Language Processing (NLP) and a graph-theoretic algorithm. Methods: Our method, called GRGT (Grammatical Relationship Graph for Triplets), not only extracts the pairs of terms that have certain relationships, but also extracts the type of relationship (the word describing the relationships). In addition, the directionality of the relationship can also be extracted. Our method is based on the assumption that a triplet exists for a pair of interactions. A triplet is defined as two terms (entities) and an interaction word describing the relationship of the two terms in a sentence. We first use a sentence parsing tool to obtain the sentence structure represented as a dependency graph where words are nodes and edges are typed dependencies. The shortest paths among the pairs of words in the triplet are then extracted, which form the basis for our information extraction method. Flexible pattern matching scheme was then used to match a triplet graph with unknown relationship to those triplet graphs with labels (True or False) in the database. Results: We applied the method on three benchmark datasets to extract the protein-protein-interactions (PPIs), and obtained better precision than the top performing methods in literature. Conclusions: We have developed a method to extract the protein-protein interactions from biomedical literature. PPIs extracted by our method have higher precision among other methods, suggesting that our method can be used to effectively extract PPIs and deposit them into databases. Beyond extracting PPIs, our method could be easily extended to extracting relationship information between other bio-entities. 

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3. Open-World Knowledge Graph Completion

   Shi, Baoxu; Weninger, Tim (April 2018, Association for the Advancement of Artificial Intelligence)

   Knowledge Graphs (KGs) have been applied to many tasks including Web search, link prediction, recommendation, natural language processing, and entity linking. However, most KGs are far from complete and are growing at a rapid pace. To address these problems, Knowledge Graph Completion (KGC) has been proposed to improve KGs by filling in its missing connections. Unlike existing methods which hold a closed-world assumption, i.e., where KGs are fixed and new entities cannot be easily added, in the present work we relax this assumption and propose a new open-world KGC task. As a first attempt to solve this task we introduce an open-world KGC model called ConMask. This model learns embeddings of the entity's name and parts of its text-description to connect unseen entities to the KG. To mitigate the presence of noisy text descriptions, ConMask uses a relationship-dependent content masking to extract relevant snippets and then trains a fully convolutional neural network to fuse the extracted snippets with entities in the KG. Experiments on large data sets, both old and new, show that ConMask performs well in the open-world KGC task and even outperforms existing KGC models on the standard closed-world KGC task. 

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4. HGATs: hierarchical graph attention networks for multiple comments integration

   https://doi.org/10.1145/3487351.3488322  

   Zhan, Huixin; Zhang, Kun; Hu, Chenyi; Sheng, Victor S. (November 2021, IEEE/ACM ASONAM 2021)

   For decades, research in natural language processing (NLP) has focused on summarization. Sequence-to-sequence models for abstractive summarization have been studied extensively, yet generated summaries commonly suffer from fabricated content, and are often found to be near-extractive. We argue that, to address these issues, summarizers need to acquire the co-references that form multiple types of relations over input sentences, e.g., 1-to-N, N-to-1, and N-to-N relations, since the structured knowledge for text usually appears on these relations. By allowing the decoder to pay different attention to the input sentences for the same entity at different generation states, the structured graph representations generate more informative summaries. In this paper, we propose a hierarchical graph attention networks (HGATs) for abstractive summarization with a topicsensitive PageRank augmented graph. Specifically, we utilize dual decoders, a sequential sentence decoder, and a graph-structured decoder (which are built hierarchically) to maintain the global context and local characteristics of entities, complementing each other. We further design a greedy heuristic to extract salient users’ comments while avoiding redundancy to drive a model to better capture entity interactions. Our experimental results show that our models produce significantly higher ROUGE scores than variants without graph-based attention on both SSECIF and CNN/Daily Mail (CNN/DM) datasets. 

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5. Should We Rely on Entity Mentions for Relation Extraction? Debiasing Relation Extraction with Counterfactual Analysis

   https://doi.org/10.18653/v1/2022.naacl-main.224  

   Wang, Yiwei; Chen, Muhao; Zhou, Wenxuan; Cai, Yujun; Liang, Yuxuan; Liu, Dayiheng; Yang, Baosong; Liu, Juncheng; Hooi, Bryan (January 2022, Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies)

   Recent literature focuses on utilizing the entity information in the sentence-level relation extraction (RE), but this risks leaking superficial and spurious clues of relations. As a result, RE still suffers from unintended entity bias, i.e., the spurious correlation between entity mentions (names) and relations. Entity bias can mislead the RE models to extract the relations that do not exist in the text. To combat this issue, some previous work masks the entity mentions to prevent the RE models from over-fitting entity mentions. However, this strategy degrades the RE performance because it loses the semantic information of entities. In this paper, we propose the CoRE (Counterfactual Analysis based Relation Extraction) debiasing method that guides the RE models to focus on the main effects of textual context without losing the entity information. We first construct a causal graph for RE, which models the dependencies between variables in RE models. Then, we propose to conduct counterfactual analysis on our causal graph to distill and mitigate the entity bias, that captures the causal effects of specific entity mentions in each instance. Note that our CoRE method is model-agnostic to debias existing RE systems during inference without changing their training processes. Extensive experimental results demonstrate that our CoRE yields significant gains on both effectiveness and generalization for RE. The source code is provided at: https://github.com/vanoracai/CoRE. 

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