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This work investigates multiple approaches to Named Entity Recognition (NER) for text in Electronic Health Record (EHR) data.
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Ogren PV, Savova GK, Chute CG. Constructing evaluation corpora for automated clinical named entity recognition. InMedinfo 2007: Proceedings of the 12th World Congress on Health (Medical) Informatics; Building Sustainable Health Systems 2007, IOS Press, p. 2325
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Alex B, Haddow B, Grover C. Recognising nested named entities in biomedical text. In: Proceedings of the Workshop on BioNLP 2007: Biological, Translational, and Clinical Language Processing. 2007, pp. 65-72
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Grover C, Haddow B, Klein E, Matthews M, Nielsen LA, Tobin R, Wang X. Adapting a relation extraction pipeline for the BioCreAtIvE II task. Proceedings of the BioCreAtIvE II Workshop. 2007, pp. 273-86
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Leaman R, Gonzalez G. BANNER: an executable survey of advances in biomedical named entity recognition. In: Biocomputing 2008, pp. 652-63
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Meystre SM, Savova GK, Kipper-Schuler KC, Hurdle JF. Extracting information from textual documents in the electronic health record: a review of recent research. Yearbook of Medical Informatics. 2008(01);17:128-44
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Ritter A, Clark S, Etzioni O. Named entity recognition in tweets: an experimental study. In: Proceedings of the conference on empirical methods in natural language processing, 2011, pp. 1524-34
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Rocktäschel T, Weidlich M, Leser U. ChemSpot: a hybrid system for chemical named entity recognition. Bioinformatics. 2012, 28(12):1633-40
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Nothman J, Ringland N, Radford W, Murphy T, Curran JR. Learning multilingual named entity recognition from Wikipedia. Artificial Intelligence. 2013 Jan 1, 194:151-75
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Arnold A, Nallapati R, Cohen WW. Exploiting feature hierarchy for transfer learning in named entity recognition. In: Proceedings of ACL-08: HLT. 2008:245-53
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Collobert R, Weston J. A unified architecture for natural language processing: Deep neural networks with multitask learning. In: Proceedings of the 25th International Conference on Machine Learning, ACM, 2008, pp. 160-7
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Jackson C, Crossland L, Dennis M, Wardlaw J, Sudlow C. Assessing the impact of the requirement for explicit consent in a hospital-based stroke study. QJM: Monthly Journal of the Association of Physicians. 2008, 101(4):281-9
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Ratinov L, Roth D. Design challenges and misconceptions in named entity recognition. In: Proceedings of the Thirteenth Conference on Computational Natural Language Learning, 2009, pp. 147-55
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Savova GK, Masanz JJ, Ogren PV, Zheng J, Sohn S, Kipper-Schuler KC, Chute CG. Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications. Journal of the American Medical Informatics Association. 2010 Sep 1, 17(5):507-13
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Flynn RWV, Macdonald TM, Schembri N, Murray GD, Doney ASF. Automated data capture from free-text radiology reports to enhance accuracy of hospital inpatient stroke codes. Pharmacoepidemiology and drug safety. 2010, 19(8):843-7
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2015
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Zhou J, Xu W. End-to-end Learning of Semantic Role Labeling Using Recurrent Neural Networks. In: Proceedings of the 53rd Annual Meeting of the Association for Computational Linguistics and the 7th International Joint Conference on Natural Language Processing, Beijing, China, 2015, pp. 1127-37,
2015
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Cornegruta S, Bakewell R, Withey S, Montana G. Modelling radiological language with bidirectional long short-term memory networks. In: Proceedings of the 7th International Workshop on Health Text Mining and Information Analysis, 2016, pp. 17-27
2016
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Pons E, Braun LMM, Hunink MGM, Kors JA. Natural language processing in radiology: a systematic review. Radiology. 2016(2);279:329-343
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Wu H, Toti G, Morley KI, Ibrahim ZM, Folarin A, Jackson R, Kartoglu I, Agrawal A, Stringer C, Gale D, Gorrell G, et al. SemEHR: A general-purpose semantic search system to surface semantic data from clinical notes for tailored care, trial recruitment, and clinical research. Journal of the American Medical Informatics Association, 2018, 25(5):530-7
2018
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Alex B, Grover C, Tobin R, Sudlow C, Mair G, Whiteley W. Text Mining Brain Imaging Reports. Journal of Biomedical Semantics, accepted for a special issue to appear in 2019, preprint available at
2019
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