TY - JOUR AU - Gehrmann, S. AU - Dernoncourt, F. AU - Li, Y. AU - Carlson, E. T. AU - Wu, J. T. AU - Welt, J. AU - Foote, J. AU - Moseley, E. T. AU - Grant, D. W. AU - Tyler, P. D. PY - 2018 DA - 2018// TI - Comparing deep learning and concept extraction based methods for patient phenotyping from clinical narratives JO - PLoS One VL - 13 UR - https://doi.org/10.1371/journal.pone.0192360 DO - 10.1371/journal.pone.0192360 ID - Gehrmann2018 ER - TY - JOUR AU - Tao, C. AU - Filannino, M. AU - Uzuner, Ö. PY - 2017 DA - 2017// TI - Prescription extraction using CRFs and word embeddings JO - J Biomed Inform VL - 72 UR - https://doi.org/10.1016/j.jbi.2017.07.002 DO - 10.1016/j.jbi.2017.07.002 ID - Tao2017 ER - TY - STD TI - Jagannatha AN, Yu H. Bidirectional RNN for medical event detection in electronic health records. In Proceedings of the conference. Association for Computational Linguistics 2016. North American chapter. Meeting NIH Public Access, 473. ID - ref3 ER - TY - STD TI - Chalapathy R, Borzeshi EZ, Piccardi M. An investigation of recurrent neural architectures for drug name recognition. arXiv preprint arXiv. 2016:1609.07585. ID - ref4 ER - TY - JOUR AU - Zeng, D. AU - Sun, C. AU - Lin, L. AU - Liu, B. PY - 2017 DA - 2017// TI - LSTM-CRF for drug- named entity recognition JO - Entropy VL - 19 UR - https://doi.org/10.3390/e19060283 DO - 10.3390/e19060283 ID - Zeng2017 ER - TY - JOUR AU - Huang, C. C. AU - Lu, Z. PY - 2015 DA - 2015// TI - Community challenges in biomedical text mining over 10 years: success, failure and the future JO - Brief Bioinform VL - 17 UR - https://doi.org/10.1093/bib/bbv024 DO - 10.1093/bib/bbv024 ID - Huang2015 ER - TY - JOUR AU - Kreuzthaler, M. AU - Schulz, S. PY - 2015 DA - 2015// TI - Detection of sentence boundaries and abbreviations in clinical narratives JO - BMC medical informatics and decision making VL - 15 UR - https://doi.org/10.1186/1472-6947-15-S2-S4 DO - 10.1186/1472-6947-15-S2-S4 ID - Kreuzthaler2015 ER - TY - CHAP AU - Kreuzthaler, M. AU - Oleynik, M. AU - Avian, A. AU - Schulz, S. PY - 2016 DA - 2016// TI - Unsupervised abbreviation detection in clinical narratives BT - Proceedings of the clinical natural language processing workshop (ClinicalNLP) ID - Kreuzthaler2016 ER - TY - JOUR AU - Xu, H. AU - Stetson, P. D. AU - Friedman, C. PY - 2007 DA - 2007// TI - A study of abbreviations in clinical notes JO - AMIA Annu Symp Proc VL - 2007 ID - Xu2007 ER - TY - STD TI - Wu Y, Denny JC, Rosenbloom ST, Miller RA, Giuse DA, Wang L, Blanquicett C, Soysal E, Xu J, Xu H. A long journey to short abbreviations: developing an open-source framework for clinical abbreviation recognition and disambiguation (CARD). J Am Med Inform Assoc. 2016:24(e1). ID - ref10 ER - TY - JOUR AU - Chapman, W. W. AU - Bridewell, W. AU - Hanbury, P. AU - Cooper, G. F. AU - Buchanan, B. G. PY - 2001 DA - 2001// TI - A simple algorithm for identifying negated findings and diseases in discharge summaries JO - J Biomed Inform VL - 34 UR - https://doi.org/10.1006/jbin.2001.1029 DO - 10.1006/jbin.2001.1029 ID - Chapman2001 ER - TY - JOUR AU - Meystre, S. M. AU - Savova, G. K. AU - Kipper-Schuler, K. C. AU - Hurdle, J. F. PY - 2008 DA - 2008// TI - Extracting information from textual documents in the electronic health record: a review of recent research JO - Yearb Med Inform VL - 35 ID - Meystre2008 ER - TY - JOUR AU - Meystre, S. AU - Lovis, C. AU - Bürkle, T. AU - Tognola, G. AU - Budrionis, A. AU - Lehmann, C. PY - 2017 DA - 2017// TI - Clinical data reuse or secondary use: current status and potential future progress JO - Yearbook of medical informatics VL - 26 UR - https://doi.org/10.15265/IY-2017-007 DO - 10.15265/IY-2017-007 ID - Meystre2017 ER - TY - JOUR AU - Koopman, B. AU - Zuccon, G. AU - Nguyen, A. AU - Bergheim, A. AU - Grayson, N. PY - 2015 DA - 2015// TI - Automatic ICD-10 classification of cancers from free-text death certificates JO - Int J Med Inform VL - 84 UR - https://doi.org/10.1016/j.ijmedinf.2015.08.004 DO - 10.1016/j.ijmedinf.2015.08.004 ID - Koopman2015 ER - TY - JOUR AU - Koopman, B. AU - Karimi, S. AU - Nguyen, A. AU - McGuire, R. AU - Muscatello, D. AU - Kemp, M. AU - Truran, D. AU - Zhang, M. AU - Thackway, S. PY - 2015 DA - 2015// TI - Automatic classification of diseases from free-text death certificates for real-time surveillance JO - BMC Med Inform Decis Mak VL - 15 UR - https://doi.org/10.1186/s12911-015-0174-2 DO - 10.1186/s12911-015-0174-2 ID - Koopman2015 ER - TY - JOUR AU - Ning, W. AU - Yu, M. AU - Zhang, R. PY - 2016 DA - 2016// TI - A hierarchical method to automatically encode Chinese diagnoses through semantic similarity estimation JO - BMC Med Inform Decis Mak VL - 16 UR - https://doi.org/10.1186/s12911-016-0269-4 DO - 10.1186/s12911-016-0269-4 ID - Ning2016 ER - TY - JOUR AU - Chen, Y. AU - Lu, H. AU - Li, L. PY - 2017 DA - 2017// TI - Automatic ICD-10 coding algorithm using an improved longest common subsequence based on semantic similarity JO - PLoS One VL - 12 UR - https://doi.org/10.1371/journal.pone.0173410 DO - 10.1371/journal.pone.0173410 ID - Chen2017 ER - TY - STD TI - Boytcheva S. Automatic matching of ICD-10 codes to diagnoses in discharge letters. In Proceedings of the Workshop on Biomedical Natural Language Processing 2011. 9, pp. 11–18. ID - ref18 ER - TY - JOUR AU - Lee, J. Y. AU - Dernoncourt, F. AU - Uzuner, O. AU - Szolovits, P. PY - 2016 DA - 2016// TI - Feature-augmented neural networks for patient note de-identification JO - arXiv preprint arXiv VL - 1610 ID - Lee2016 ER - TY - JOUR AU - Dernoncourt, F. AU - Lee, J. Y. AU - Uzuner, O. AU - Szolovits, P. PY - 2017 DA - 2017// TI - De-identification of patient notes with recurrent neural networks JO - J Am Med Inform Assoc VL - 24 ID - Dernoncourt2017 ER - TY - JOUR AU - Hagerup, T. AU - Rüb, C. PY - 1990 DA - 1990// TI - A guided tour of Chernoff bounds JO - Inf Process Lett VL - 33 UR - https://doi.org/10.1016/0020-0190(90)90214-I DO - 10.1016/0020-0190(90)90214-I ID - Hagerup1990 ER - TY - STD TI - Zhao Y, Zhang C, Zhang S. Efficient frequent Itemsets mining by sampling. AMT. 2006;138:112–7. ID - ref22 ER - TY - BOOK AU - Manning, C. D. AU - Raghavan, P. AU - Schütze, H. PY - 2008 DA - 2008// TI - Introduction to information retrieval PB - Cambridge university press CY - Cambridge UR - https://doi.org/10.1017/CBO9780511809071 DO - 10.1017/CBO9780511809071 ID - Manning2008 ER - TY - STD TI - McCandless M, Hatcher E, and Gospodnetic O. Lucene in action: covers apache Lucene 3.0. Manning publications co., 2010. ID - ref24 ER - TY - JOUR AU - Salton, G. AU - Wong, A. AU - Yang, C. PY - 1975 DA - 1975// TI - A vector space model for automatic indexing JO - Commun ACM VL - 18 UR - https://doi.org/10.1145/361219.361220 DO - 10.1145/361219.361220 ID - Salton1975 ER - TY - JOUR AU - Boerjesson, E. AU - Hofsten, C. PY - 1975 DA - 1975// TI - A vector model for perceived object rotation and translation in space JO - Psychol Res VL - 38 UR - https://doi.org/10.1007/BF00308525 DO - 10.1007/BF00308525 ID - Boerjesson1975 ER - TY - JOUR AU - Landauer, T. AU - Dumais, S. PY - 1997 DA - 1997// TI - A solution to Plato’s problem: the latent semantic analysis theory of acquisition, induction, and representation of knowledge JO - Psychol Rev VL - 104 UR - https://doi.org/10.1037/0033-295X.104.2.211 DO - 10.1037/0033-295X.104.2.211 ID - Landauer1997 ER - TY - JOUR AU - Landauer, T. AU - Foltz, P. AU - Laham, D. PY - 1998 DA - 1998// TI - An introduction to latent semantic analysis JO - Discourse Processes VL - 25 UR - https://doi.org/10.1080/01638539809545028 DO - 10.1080/01638539809545028 ID - Landauer1998 ER - TY - JOUR AU - Müllner, D. PY - 2013 DA - 2013// TI - Fastcluster: fast hierarchical, agglomerative clustering routines for R and python JO - J Stat Softw VL - 53 UR - https://doi.org/10.18637/jss.v053.i09 DO - 10.18637/jss.v053.i09 ID - Müllner2013 ER - TY - JOUR AU - Kodinariya, T. M. AU - Makwana, P. R. PY - 2013 DA - 2013// TI - Review on determining number of cluster in K-means clustering JO - Int J VL - 1 ID - Kodinariya2013 ER - TY - JOUR AU - Rousseeuw, P. PY - 1987 DA - 1987// TI - Silhouettes: a graphical aid to the interpretation and validation of cluster analysis JO - J Comput Appl Math VL - 20 UR - https://doi.org/10.1016/0377-0427(87)90125-7 DO - 10.1016/0377-0427(87)90125-7 ID - Rousseeuw1987 ER -