Literature DB >> 25123738

Managing free text for secondary use of health data.

N Griffon, J Charlet, S J Darmoni.   

Abstract

OBJECTIVE: To summarize the best papers in the field of Knowledge Representation and Management (KRM).
METHODS: A comprehensive review of medical informatics literature was performed to select some of the most interesting papers of KRM and natural language processing (NLP) published in 2013.
RESULTS: Four articles were selected, one focuses on Electronic Health Record (EHR) interoperability for clinical pathway personalization based on structured data. The other three focus on NLP (corpus creation, de-identification, and co-reference resolution) and highlight the increase in NLP tools performances.
CONCLUSION: NLP tools are close to being seriously concurrent to humans in some annotation tasks. Their use could increase drastically the amount of data usable for meaningful use of EHR.

Entities:  

Keywords:  Medical informatics; knowledge representation; natural language processing; ontology; semantic web

Mesh:

Year:  2014        PMID: 25123738      PMCID: PMC4287081          DOI: 10.15265/IY-2014-0037

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


  8 in total

Review 1.  Evaluating the state of the art in coreference resolution for electronic medical records.

Authors:  Ozlem Uzuner; Andreea Bodnari; Shuying Shen; Tyler Forbush; John Pestian; Brett R South
Journal:  J Am Med Inform Assoc       Date:  2012-02-24       Impact factor: 4.497

2.  Toward a national framework for the secondary use of health data: an American Medical Informatics Association White Paper.

Authors:  Charles Safran; Meryl Bloomrosen; W Edward Hammond; Steven Labkoff; Suzanne Markel-Fox; Paul C Tang; Don E Detmer
Journal:  J Am Med Inform Assoc       Date:  2006-10-31       Impact factor: 4.497

3.  A controlled greedy supervised approach for co-reference resolution on clinical text.

Authors:  Md Faisal Mahbub Chowdhury; Pierre Zweigenbaum
Journal:  J Biomed Inform       Date:  2013-04-04       Impact factor: 6.317

4.  Formative evaluation of ontology learning methods for entity discovery by using existing ontologies as reference standards.

Authors:  K Liu; K J Mitchell; W W Chapman; G K Savova; N Sioutos; D L Rubin; R S Crowley
Journal:  Methods Inf Med       Date:  2013-05-13       Impact factor: 2.176

5.  Terminology representation guidelines for biomedical ontologies in the semantic web notations.

Authors:  Cui Tao; Jyotishman Pathak; Harold R Solbrig; Wei-Qi Wei; Christopher G Chute
Journal:  J Biomed Inform       Date:  2012-09-28       Impact factor: 6.317

6.  Creating personalised clinical pathways by semantic interoperability with electronic health records.

Authors:  Hua-Qiong Wang; Jing-Song Li; Yi-Fan Zhang; Muneou Suzuki; Kenji Araki
Journal:  Artif Intell Med       Date:  2013-03-05       Impact factor: 5.326

7.  Large-scale evaluation of automated clinical note de-identification and its impact on information extraction.

Authors:  Louise Deleger; Katalin Molnar; Guergana Savova; Fei Xia; Todd Lingren; Qi Li; Keith Marsolo; Anil Jegga; Megan Kaiser; Laura Stoutenborough; Imre Solti
Journal:  J Am Med Inform Assoc       Date:  2012-08-02       Impact factor: 4.497

8.  Identifying medical terms in patient-authored text: a crowdsourcing-based approach.

Authors:  Diana Lynn MacLean; Jeffrey Heer
Journal:  J Am Med Inform Assoc       Date:  2013-05-05       Impact factor: 4.497

  8 in total
  5 in total

1.  Natural Language Processing Combined with ICD-9-CM Codes as a Novel Method to Study the Epidemiology of Allergic Drug Reactions.

Authors:  Aleena Banerji; Kenneth H Lai; Yu Li; Rebecca R Saff; Carlos A Camargo; Kimberly G Blumenthal; Li Zhou
Journal:  J Allergy Clin Immunol Pract       Date:  2019-12-16

2.  Evaluating the Portability of an NLP System for Processing Echocardiograms: A Retrospective, Multi-site Observational Study.

Authors:  Prakash Adekkanattu; Guoqian Jiang; Yuan Luo; Paul R Kingsbury; Zhenxing Xu; Luke V Rasmussen; Jennifer A Pacheco; Richard C Kiefer; Daniel J Stone; Pascal S Brandt; Liang Yao; Yizhen Zhong; Yu Deng; Fei Wang; Jessica S Ancker; Thomas R Campion; Jyotishman Pathak
Journal:  AMIA Annu Symp Proc       Date:  2020-03-04

Review 3.  Knowledge Representation and Management, It's Time to Integrate!

Authors:  F Dhombres; J Charlet
Journal:  Yearb Med Inform       Date:  2017-09-11

4.  Automated Extraction of Tumor Staging and Diagnosis Information From Surgical Pathology Reports.

Authors:  Sajjad Abedian; Evan T Sholle; Prakash M Adekkanattu; Marika M Cusick; Stephanie E Weiner; Jonathan E Shoag; Jim C Hu; Thomas R Campion
Journal:  JCO Clin Cancer Inform       Date:  2021-10

5.  From Sour Grapes to Low-Hanging Fruit: A Case Study Demonstrating a Practical Strategy for Natural Language Processing Portability.

Authors:  Stephen B Johnson; Prakash Adekkanattu; Thomas R Campion; James Flory; Jyotishman Pathak; Olga V Patterson; Scott L DuVall; Vincent Major; Yindalon Aphinyanaphongs
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2018-05-18
  5 in total

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