Literature DB >> 27830256

Clinical Natural Language Processing in 2015: Leveraging the Variety of Texts of Clinical Interest.

A Névéol1, P Zweigenbaum2.   

Abstract

OBJECTIVE: To summarize recent research and present a selection of the best papers published in 2015 in the field of clinical Natural Language Processing (NLP).
METHOD: A systematic review of the literature was performed by the two section editors of the IMIA Yearbook NLP section by searching bibliographic databases with a focus on NLP efforts applied to clinical texts or aimed at a clinical outcome. Section editors first selected a shortlist of candidate best papers that were then peer-reviewed by independent external reviewers.
RESULTS: The clinical NLP best paper selection shows that clinical NLP is making use of a variety of texts of clinical interest to contribute to the analysis of clinical information and the building of a body of clinical knowledge. The full review process highlighted five papers analyzing patient-authored texts or seeking to connect and aggregate multiple sources of information. They provide a contribution to the development of methods, resources, applications, and sometimes a combination of these aspects.
CONCLUSIONS: The field of clinical NLP continues to thrive through the contributions of both NLP researchers and healthcare professionals interested in applying NLP techniques to impact clinical practice. Foundational progress in the field makes it possible to leverage a larger variety of texts of clinical interest for healthcare purposes.

Entities:  

Keywords:  Awards and prizes; computer-assisted; decision making; medical informatics/trends; natural language processing; semantics

Mesh:

Year:  2016        PMID: 27830256      PMCID: PMC5171575          DOI: 10.15265/IY-2016-049

Source DB:  PubMed          Journal:  Yearb Med Inform        ISSN: 0943-4747


  29 in total

1.  Overcoming barriers to NLP for clinical text: the role of shared tasks and the need for additional creative solutions.

Authors:  Wendy W Chapman; Prakash M Nadkarni; Lynette Hirschman; Leonard W D'Avolio; Guergana K Savova; Ozlem Uzuner
Journal:  J Am Med Inform Assoc       Date:  2011 Sep-Oct       Impact factor: 4.497

2.  Automating the generation of lexical patterns for processing free text in clinical documents.

Authors:  Frank Meng; Craig Morioka
Journal:  J Am Med Inform Assoc       Date:  2015-05-14       Impact factor: 4.497

3.  Domain adaptation for semantic role labeling of clinical text.

Authors:  Yaoyun Zhang; Buzhou Tang; Min Jiang; Jingqi Wang; Hua Xu
Journal:  J Am Med Inform Assoc       Date:  2015-06-10       Impact factor: 4.497

4.  On the creation of a clinical gold standard corpus in Spanish: Mining adverse drug reactions.

Authors:  Maite Oronoz; Koldo Gojenola; Alicia Pérez; Arantza Díaz de Ilarraza; Arantza Casillas
Journal:  J Biomed Inform       Date:  2015-06-30       Impact factor: 6.317

5.  DEEPEN: A negation detection system for clinical text incorporating dependency relation into NegEx.

Authors:  Saeed Mehrabi; Anand Krishnan; Sunghwan Sohn; Alexandra M Roch; Heidi Schmidt; Joe Kesterson; Chris Beesley; Paul Dexter; C Max Schmidt; Hongfang Liu; Mathew Palakal
Journal:  J Biomed Inform       Date:  2015-03-16       Impact factor: 6.317

6.  Toward high-throughput phenotyping: unbiased automated feature extraction and selection from knowledge sources.

Authors:  Sheng Yu; Katherine P Liao; Stanley Y Shaw; Vivian S Gainer; Susanne E Churchill; Peter Szolovits; Shawn N Murphy; Isaac S Kohane; Tianxi Cai
Journal:  J Am Med Inform Assoc       Date:  2015-04-29       Impact factor: 4.497

7.  Challenges and practical approaches with word sense disambiguation of acronyms and abbreviations in the clinical domain.

Authors:  Sungrim Moon; Bridget McInnes; Genevieve B Melton
Journal:  Healthc Inform Res       Date:  2015-01-31

8.  Automatic ICD-10 classification of cancers from free-text death certificates.

Authors:  Bevan Koopman; Guido Zuccon; Anthony Nguyen; Anton Bergheim; Narelle Grayson
Journal:  Int J Med Inform       Date:  2015-08-13       Impact factor: 4.046

9.  An end-to-end hybrid algorithm for automated medication discrepancy detection.

Authors:  Qi Li; Stephen Andrew Spooner; Megan Kaiser; Nataline Lingren; Jessica Robbins; Todd Lingren; Huaxiu Tang; Imre Solti; Yizhao Ni
Journal:  BMC Med Inform Decis Mak       Date:  2015-05-06       Impact factor: 2.796

10.  Automated clinical trial eligibility prescreening: increasing the efficiency of patient identification for clinical trials in the emergency department.

Authors:  Yizhao Ni; Stephanie Kennebeck; Judith W Dexheimer; Constance M McAneney; Huaxiu Tang; Todd Lingren; Qi Li; Haijun Zhai; Imre Solti
Journal:  J Am Med Inform Assoc       Date:  2014-07-16       Impact factor: 4.497

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  11 in total

Review 1.  Capturing the Patient's Perspective: a Review of Advances in Natural Language Processing of Health-Related Text.

Authors:  G Gonzalez-Hernandez; A Sarker; K O'Connor; G Savova
Journal:  Yearb Med Inform       Date:  2017-09-11

2.  A bibliometric analysis of 23,492 publications on rectal cancer by machine learning: basic medical research is needed.

Authors:  Kangtao Wang; Chenzhe Feng; Ming Li; Qian Pei; Yuqiang Li; Hong Zhu; Xiangping Song; Haiping Pei; Fengbo Tan
Journal:  Therap Adv Gastroenterol       Date:  2020-07-27       Impact factor: 4.409

3.  Automatic classification of histopathological diagnoses for building a large scale tissue catalogue.

Authors:  Robert Reihs; Heimo Müller; Stefan Sauer; Kurt Zatloukal
Journal:  Health Technol (Berl)       Date:  2016-12-22

4.  Training Augmented Intelligent Capabilities for Pharmacovigilance: Applying Deep-learning Approaches to Individual Case Safety Report Processing.

Authors:  Danielle Abatemarco; Sujan Perera; Sheng Hua Bao; Sameen Desai; Bruno Assuncao; Niki Tetarenko; Karolina Danysz; Ruta Mockute; Mark Widdowson; Nicole Fornarotto; Sheryl Beauchamp; Salvatore Cicirello; Edward Mingle
Journal:  Pharmaceut Med       Date:  2018-10-13

Review 5.  Systematic Evaluation of Research Progress on Natural Language Processing in Medicine Over the Past 20 Years: Bibliometric Study on PubMed.

Authors:  Jing Wang; Huan Deng; Bangtao Liu; Anbin Hu; Jun Liang; Lingye Fan; Xu Zheng; Tong Wang; Jianbo Lei
Journal:  J Med Internet Res       Date:  2020-01-23       Impact factor: 5.428

6.  Publication Landscape Analysis on Gliomas: How Much Has Been Done in the Past 25 Years?

Authors:  Chenzhe Feng; Yijun Wu; Lu Gao; Xiaopeng Guo; Zihao Wang; Bing Xing
Journal:  Front Oncol       Date:  2020-01-17       Impact factor: 6.244

7.  A Bibliometric Analysis of 8,276 Publications During the Past 25 Years on Cholangiocarcinoma by Machine Learning.

Authors:  Zeyu Zhang; Zhiming Wang; Yun Huang
Journal:  Front Oncol       Date:  2021-09-07       Impact factor: 6.244

8.  A Bibliometric Analysis of 34,692 Publications on Thyroid Cancer by Machine Learning: How Much Has Been Done in the Past Three Decades?

Authors:  Zeyu Zhang; Lei Yao; Wenlong Wang; Bo Jiang; Fada Xia; Xinying Li
Journal:  Front Oncol       Date:  2021-10-14       Impact factor: 6.244

Review 9.  Clinical Natural Language Processing in languages other than English: opportunities and challenges.

Authors:  Aurélie Névéol; Hercules Dalianis; Sumithra Velupillai; Guergana Savova; Pierre Zweigenbaum
Journal:  J Biomed Semantics       Date:  2018-03-30

10.  A bibliometric analysis of natural language processing in medical research.

Authors:  Xieling Chen; Haoran Xie; Fu Lee Wang; Ziqing Liu; Juan Xu; Tianyong Hao
Journal:  BMC Med Inform Decis Mak       Date:  2018-03-22       Impact factor: 2.796

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