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Contextual word embedding models, such as BioBERT and Bio_ClinicalBERT, have achieved state-of-the-art results in biomedical natural language processing tasks by focusing their pre-training process on domain-specific corpora.
Sensebert: Driving some sense into bert
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Huggingface’s transformers: State-of-the-art natural language processing
Thomas Wolf, Lysandre Debut, Victor Sanh, Julien Chaumond, Clement Delangue, Anthony Moi, Pierric Cistac, Tim Rault, R’emi Louf, Morgan Funtowicz, and Jamie Brew. 2019 · 1910
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George A. Miller. 1995 · 1995
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Aggregating umls semantic types for reducing conceptual complexity
Alexa McCray, Anita Burgun, and Olivier Bodenreider. 2001 · 2001
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The Unified Medical Language System (UMLS): integrating biomedical terminology
O. Bodenreider. 2004 · 2004
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Icd-10 : international statistical classification of diseases and related health problems : tenth revision
World Health Organization. 2004 · 2004
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Evaluating the state-of-the-art in automatic de-identification
Ozlem Uzuner, Yuan Luo, and Peter Szolovits. 2007 · 2007
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Mayo clinical text analysis and knowledge extraction system (ctakes): architecture, component evaluation and applications
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2010 i2b2/va challenge on concepts, assertions, and relations in clinical text
Ozlem Uzuner, Brett South, Shuying Shen, and Scott DuVall. 2011 · 2010
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Medical subject headings (mesh) terms
Ish Kumar Dhammi and Sudhir Kumar. 2014 · 2014
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Automated systems for the de-identification of longitudinal clinical narratives: Overview of 2014 i2b2/uthealth shared task track 1
Amber Stubbs, Christopher Kotfila, and Özlem Uzuner. 2015 · 2014
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Mimic-iii, a freely accessible critical care database
Alistair EW Johnson, Tom J Pollard, Lu Shen, H Lehman Li-wei, Mengling Feng, Mohammad Ghassemi, Benjamin Moody, Peter Szolovits, Leo Anthony Celi, and Roger G Mark. 2016 · 2016
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Google’s neural machine translation system: Bridging the gap between human and machine translation
Yonghui Wu, Mike Schuster, Zhifeng Chen, Quoc V. Le, Mohammad Norouzi, Wolfgang Macherey, Maxim Krikun, Yuan Cao, Qin Gao, Klaus Macherey, Jeff Klingner, Apurva Shah, Melvin Johnson, Xiaobing Liu, Lukasz Kaiser, Stephan Gouws, Yoshikiyo Kato, Taku Kudo, Hideto Kazawa, Keith Stevens, George Kurian, Nishant Patil, Wei Wang, Cliff Young, Jason Smith, Jason Riesa, Alex Rudnick, Oriol Vinyals, Gregory S. Corrado, Macduff Hughes, and Jeffrey Dean. 2016 · 2016
Deep contextualized word representations
Matthew Peters, Mark Neumann, Mohit Iyyer, Matt Gardner, Christopher Clark, Kenton Lee, and Luke Zettlemoyer. 2018 · 2018
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Lessons from natural language inference in the clinical domain
Alexey Romanov and Chaitanya Shivade. 2018 · 2018
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Publicly available clinical BERT embeddings
Emily Alsentzer, John Murphy, William Boag, Wei-Hung Weng, Di Jindi, Tristan Naumann, and Matthew McDermott. 2019 · 2019
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Bert: Pre-training of deep bidirectional transformers for language understanding
Jacob Devlin, Ming-Wei Chang, Kenton Lee, and Kristina Toutanova. 2019 · 2019
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Show your work: Improved reporting of experimental results
Jesse Dodge, Suchin Gururangan, Dallas Card, Roy Schwartz, and Noah A. Smith. 2019 · 2019
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Glossbert: Bert for word sense disambiguation with gloss knowledge
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Cited alongside, same era.
Deep learning with word embeddings improves biomedical named entity recognition
Maryam Habibi, Leon Weber, Mariana Neves, David Luis Wiegandt, and Ulf Leser. 2017 · 2017
Cited alongside, same era.
Overview of the biocreative vi chemical-protein interaction track
Martin Krallinger, O. Rabal, S. A. Akhondi, M. Pérez, Jesús Santamaría, Gael Pérez Rodríguez, G. Tsatsaronis, Ander Intxaurrondo, J. A. López, Umesh Nandal, E. V. Buel, A. Chandrasekhar, Marleen Rodenburg, A. Lægreid, Marius A. Doornenbal, J. Oyarzábal, Anália Lourenço, and A. Valencia. 2017 · 2017
Cited alongside, same era.
Ashish Vaswani, Noam Shazeer, Niki Parmar, Jakob Uszkoreit, Llion Jones, Aidan N. Gomez, Lukasz Kaiser, and Illia Polosukhin. 2017 · 2017
Cited alongside, same era.
Umap: Uniform manifold approximation and projection for dimension reduction
L. McInnes and J. Healy. 2018 · 2018
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Luyao Huang, Sun Chi, Xipeng Qiu, and Xuanjing Huang. 2019 · 2019
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BioBERT: a pre-trained biomedical language representation model for biomedical text mining
Jinhyuk Lee, Wonjin Yoon, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So, and Jaewoo Kang. 2019 · 2019
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Enhancing clinical concept extraction with contextual embeddings
Yuqi Si, Jingqi Wang, Hua Xu, and Kirk Roberts. 2019 · 2019
Later among the works it cites.