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Biomedical entity linking is the task of identifying mentions of biomedical concepts in text documents and mapping them to canonical entities in a target thesaurus.
Medmentions: A large biomedical corpus annotated with umls concepts
Sunil Mohan and Donghui Li. 2019 · 1902
Earlier work this paper cites.
Zero-shot entity linking with dense entity retrieval
Ledell Wu, Fabio Petroni, Martin Josifoski, Sebastian Riedel, and Luke Zettlemoyer. 2019 · 1911
Earlier work this paper cites.
Aidan Hogan, Eva Blomqvist, Michael Cochez, Claudia d’Amato, Gerard de Melo, Claudio Gutierrez, José Emilio Labra Gayo, Sabrina Kirrane, Sebastian Neumaier, Axel Polleres, Roberto Navigli, Axel-Cyrille Ngonga Ngomo, Sabbir M. Rashid, Anisa Rula, Lukas Schmelzeisen, Juan Sequeda, Steffen Staab, and Antoine Zimmermann. 2020 · 2003
Earlier work this paper cites.
Longformer: The long-document transformer
Iz Beltagy, Matthew E. Peters, and Arman Cohan. 2020 · 2004
Earlier work this paper cites.
MedType: Improving Medical Entity Linking with Semantic Type Prediction
Shikhar Vashishth, Rishabh Joshi, Ritam Dutt, Denis Newman-Griffis, and Carolyn Rose. 2020 · 2005
Earlier work this paper cites.
Metamap: Mapping text to the umls metathesaurus
Alan R Aronson. 2006 · 2006
Earlier work this paper cites.
Mayo clinical text analysis and knowledge extraction system (ctakes): architecture, component evaluation and applications
Guergana K Savova, James J Masanz, Philip V Ogren, Jiaping Zheng, Sunghwan Sohn, Karin C Kipper-Schuler, and Christopher G Chute. 2010 · 2010
Earlier work this paper cites.
Taggerone: joint named entity recognition and normalization with semi-markov models
Robert Leaman and Zhiyong Lu. 2016 · 2016
Earlier work this paper cites.
Biocreative v cdr task corpus: a resource for chemical disease relation extraction
Jiao Li, Yueping Sun, Robin J Johnson, Daniela Sciaky, Chih-Hsuan Wei, Robert Leaman, Allan Peter Davis, Carolyn J Mattingly, Thomas C Wiegers, and Zhiyong Lu. 2016 · 2016
Cited alongside, same era.
Quickumls: a fast, unsupervised approach for medical concept extraction
Luca Soldaini and Nazli Goharian. 2016 · 2016
Cited alongside, same era.
End-to-end neural entity linking
Nikolaos Kolitsas, Octavian-Eugen Ganea, and Thomas Hofmann. 2018 · 2018
Cited alongside, same era.
BERT: Pre-training of deep bidirectional transformers for language understanding
Jacob Devlin, Ming-Wei Chang, Kenton Lee, and Kristina Toutanova. 2019 · 2019
Cited alongside, same era.
Learning dense representations for entity retrieval
Daniel Gillick, Sayali Kulkarni, Larry Lansing, Alessandro Presta, Jason Baldridge, Eugene Ie, and Diego Garcia-Olano. 2019 · 2019
Cited alongside, same era.
ScispaCy: Fast and Robust Models for Biomedical Natural Language Processing
Mark Neumann, Daniel King, Iz Beltagy, and Waleed Ammar. 2019 · 2019
Later among the works it cites.
Latte: Latent type modeling for biomedical entity linking
Ming Zhu, Busra Celikkaya, Parminder Bhatia, and Chandan K. Reddy. 2019 · 2019
Later among the works it cites.
Parallel sequence tagging for concept recognition
Lenz Furrer, Joseph Cornelius, and Fabio Rinaldi. 2020 · 2020
Later among the works it cites.
Empirical evaluation of pretraining strategies for supervised entity linking
Thibault Févry, Nicholas FitzGerald, Livio Baldini Soares, and Tom Kwiatkowski. 2020 · 2020
Later among the works it cites.
Bert-based ranking for biomedical entity normalization
Zongcheng Ji, Qiang Wei, and Hua Xu. 2020 · 2020
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Jinhyuk Lee, Wonjin Yoon, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So, and Jaewoo Kang. 2019 · 2019
Cited alongside, same era.
Zero-shot entity linking by reading entity descriptions
Lajanugen Logeswaran, Ming-Wei Chang, Kenton Lee, Kristina Toutanova, Jacob Devlin, and Honglak Lee. 2019 · 2019
Cited alongside, same era.
Later among the works it cites.
Efficient one-pass end-to-end entity linking for questions
Belinda Z. Li, Sewon Min, Srinivasan Iyer, Yashar Mehdad, and Wen-tau Yih. 2020 · 2020
Later among the works it cites.
A generate-and-rank framework with semantic type regularization for biomedical concept normalization
Dongfang Xu, Zeyu Zhang, and Steven Bethard. 2020 · 2020
Later among the works it cites.