Jingxuan Tu


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TMR: Evaluating NER Recall on Tough Mentions
Jingxuan Tu | Constantine Lignos
Proceedings of the 16th Conference of the European Chapter of the Association for Computational Linguistics: Student Research Workshop

We propose the Tough Mentions Recall (TMR) metrics to supplement traditional named entity recognition (NER) evaluation by examining recall on specific subsets of ”tough” mentions: unseen mentions, those whose tokens or token/type combination were not observed in training, and type-confusable mentions, token sequences with multiple entity types in the test data. We demonstrate the usefulness of these metrics by evaluating corpora of English, Spanish, and Dutch using five recent neural architectures. We identify subtle differences between the performance of BERT and Flair on two English NER corpora and identify a weak spot in the performance of current models in Spanish. We conclude that the TMR metrics enable differentiation between otherwise similar-scoring systems and identification of patterns in performance that would go unnoticed from overall precision, recall, and F1.

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COVID-19 Literature Knowledge Graph Construction and Drug Repurposing Report Generation
Qingyun Wang | Manling Li | Xuan Wang | Nikolaus Parulian | Guangxing Han | Jiawei Ma | Jingxuan Tu | Ying Lin | Ranran Haoran Zhang | Weili Liu | Aabhas Chauhan | Yingjun Guan | Bangzheng Li | Ruisong Li | Xiangchen Song | Yi Fung | Heng Ji | Jiawei Han | Shih-Fu Chang | James Pustejovsky | Jasmine Rah | David Liem | Ahmed ELsayed | Martha Palmer | Clare Voss | Cynthia Schneider | Boyan Onyshkevych
Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies: Demonstrations

To combat COVID-19, both clinicians and scientists need to digest the vast amount of relevant biomedical knowledge in literature to understand the disease mechanism and the related biological functions. We have developed a novel and comprehensive knowledge discovery framework, COVID-KG to extract fine-grained multimedia knowledge elements (entities, relations and events) from scientific literature. We then exploit the constructed multimedia knowledge graphs (KGs) for question answering and report generation, using drug repurposing as a case study. Our framework also provides detailed contextual sentences, subfigures, and knowledge subgraphs as evidence. All of the data, KGs, reports.

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Exploration and Discovery of the COVID-19 Literature through Semantic Visualization
Jingxuan Tu | Marc Verhagen | Brent Cochran | James Pustejovsky
Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Student Research Workshop

We propose semantic visualization as a linguistic visual analytic method. It can enable exploration and discovery over large datasets of complex networks by exploiting the semantics of the relations in them. This involves extracting information, applying parameter reduction operations, building hierarchical data representation and designing visualization. We also present the accompanying COVID-SemViz a searchable and interactive visualization system for knowledge exploration of COVID-19 data to demonstrate the application of our proposed method. In the user studies, users found that semantic visualization-powered COVID-SemViz is helpful in terms of finding relevant information and discovering unknown associations.


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Reproducing Neural Ensemble Classifier for Semantic Relation Extraction inScientific Papers
Kyeongmin Rim | Jingxuan Tu | Kelley Lynch | James Pustejovsky
Proceedings of the 12th Language Resources and Evaluation Conference

Within the natural language processing (NLP) community, shared tasks play an important role. They define a common goal and allowthe the comparison of different methods on the same data. SemEval-2018 Task 7 involves the identification and classification of relationsin abstracts from computational linguistics (CL) publications. In this paper we describe an attempt to reproduce the methods and resultsfrom the top performing system at for SemEval-2018 Task 7. We describe challenges we encountered in the process, report on the resultsof our system, and discuss the ways that our attempt at reproduction can inform best practices.