Literature DB >> 32076924

Natural Language Processing in Dutch Free Text Radiology Reports: Challenges in a Small Language Area Staging Pulmonary Oncology.

J Martijn Nobel1,2, Sander Puts3, Frans C H Bakers4, Simon G F Robben4,5, André L A J Dekker3.   

Abstract

Reports are the standard way of communication between the radiologist and the referring clinician. Efforts are made to improve this communication by, for instance, introducing standardization and structured reporting. Natural Language Processing (NLP) is another promising tool which can improve and enhance the radiological report by processing free text. NLP as such adds structure to the report and exposes the information, which in turn can be used for further analysis. This paper describes pre-processing and processing steps and highlights important challenges to overcome in order to successfully implement a free text mining algorithm using NLP tools and machine learning in a small language area, like Dutch. A rule-based algorithm was constructed to classify T-stage of pulmonary oncology from the original free text radiological report, based on the items tumor size, presence and involvement according to the 8th TNM classification system. PyContextNLP, spaCy and regular expressions were used as tools to extract the correct information and process the free text. Overall accuracy of the algorithm for evaluating T-stage was 0,83 in the training set and 0,87 in the validation set, which shows that the approach in this pilot study is promising. Future research with larger datasets and external validation is needed to be able to introduce more machine learning approaches and perhaps to reduce required input efforts of domain-specific knowledge. However, a hybrid NLP approach will probably achieve the best results.

Entities:  

Keywords:  Classification system; Free text; Machine learning; Natural language processing; Radiology; Reporting

Year:  2020        PMID: 32076924      PMCID: PMC7522136          DOI: 10.1007/s10278-020-00327-z

Source DB:  PubMed          Journal:  J Digit Imaging        ISSN: 0897-1889            Impact factor:   4.056


  12 in total

1.  Influence of radiology report format on reading time and comprehension.

Authors:  Elizabeth A Krupinski; E Tyler Hall; Stacy Jaw; Bruce Reiner; Eliot Siegel
Journal:  J Digit Imaging       Date:  2012-02       Impact factor: 4.056

2.  Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications.

Authors:  Guergana K Savova; James J Masanz; Philip V Ogren; Jiaping Zheng; Sunghwan Sohn; Karin C Kipper-Schuler; Christopher G Chute
Journal:  J Am Med Inform Assoc       Date:  2010 Sep-Oct       Impact factor: 4.497

3.  Extending the NegEx lexicon for multiple languages.

Authors:  Wendy W Chapman; Dieter Hillert; Sumithra Velupillai; Maria Kvist; Maria Skeppstedt; Brian E Chapman; Mike Conway; Melissa Tharp; Danielle L Mowery; Louise Deleger
Journal:  Stud Health Technol Inform       Date:  2013

4.  Document-level classification of CT pulmonary angiography reports based on an extension of the ConText algorithm.

Authors:  Brian E Chapman; Sean Lee; Hyunseok Peter Kang; Wendy W Chapman
Journal:  J Biomed Inform       Date:  2011-04-01       Impact factor: 6.317

5.  Automated annotation and classification of BI-RADS assessment from radiology reports.

Authors:  Sergio M Castro; Eugene Tseytlin; Olga Medvedeva; Kevin Mitchell; Shyam Visweswaran; Tanja Bekhuis; Rebecca S Jacobson
Journal:  J Biomed Inform       Date:  2017-04-18       Impact factor: 6.317

6.  Inventory of tools for Dutch clinical language processing.

Authors:  Ronald Cornet; Armand Van Eldik; Nicolette De Keizer
Journal:  Stud Health Technol Inform       Date:  2012

7.  Symbolic rule-based classification of lung cancer stages from free-text pathology reports.

Authors:  Anthony N Nguyen; Michael J Lawley; David P Hansen; Rayleen V Bowman; Belinda E Clarke; Edwina E Duhig; Shoni Colquist
Journal:  J Am Med Inform Assoc       Date:  2010 Jul-Aug       Impact factor: 4.497

Review 8.  Natural Language Processing in Radiology: A Systematic Review.

Authors:  Ewoud Pons; Loes M M Braun; M G Myriam Hunink; Jan A Kors
Journal:  Radiology       Date:  2016-05       Impact factor: 11.105

9.  Progress in medical information management. Systematized nomenclature of medicine (SNOMED).

Authors:  R A Côté; S Robboy
Journal:  JAMA       Date:  1980 Feb 22-29       Impact factor: 56.272

10.  The FAIR Guiding Principles for scientific data management and stewardship.

Authors:  Mark D Wilkinson; Michel Dumontier; I Jsbrand Jan Aalbersberg; Gabrielle Appleton; Myles Axton; Arie Baak; Niklas Blomberg; Jan-Willem Boiten; Luiz Bonino da Silva Santos; Philip E Bourne; Jildau Bouwman; Anthony J Brookes; Tim Clark; Mercè Crosas; Ingrid Dillo; Olivier Dumon; Scott Edmunds; Chris T Evelo; Richard Finkers; Alejandra Gonzalez-Beltran; Alasdair J G Gray; Paul Groth; Carole Goble; Jeffrey S Grethe; Jaap Heringa; Peter A C 't Hoen; Rob Hooft; Tobias Kuhn; Ruben Kok; Joost Kok; Scott J Lusher; Maryann E Martone; Albert Mons; Abel L Packer; Bengt Persson; Philippe Rocca-Serra; Marco Roos; Rene van Schaik; Susanna-Assunta Sansone; Erik Schultes; Thierry Sengstag; Ted Slater; George Strawn; Morris A Swertz; Mark Thompson; Johan van der Lei; Erik van Mulligen; Jan Velterop; Andra Waagmeester; Peter Wittenburg; Katherine Wolstencroft; Jun Zhao; Barend Mons
Journal:  Sci Data       Date:  2016-03-15       Impact factor: 6.444

View more
  4 in total

1.  Transforming Thyroid Cancer Diagnosis and Staging Information from Unstructured Reports to the Observational Medical Outcome Partnership Common Data Model.

Authors:  Sooyoung Yoo; Eunsil Yoon; Dachung Boo; Borham Kim; Seok Kim; Jin Chul Paeng; Ie Ryung Yoo; In Young Choi; Kwangsoo Kim; Hyun Gee Ryoo; Sun Jung Lee; Eunhye Song; Young-Hwan Joo; Junmo Kim; Ho-Young Lee
Journal:  Appl Clin Inform       Date:  2022-06-15       Impact factor: 2.762

2.  Quality Management of Pulmonary Nodule Radiology Reports Based on Natural Language Processing.

Authors:  Xiaolu Fei; Pengyu Chen; Lan Wei; Yue Huang; Yi Xin; Jia Li
Journal:  Bioengineering (Basel)       Date:  2022-06-01

Review 3.  Artificial Intelligence Applications to Improve the Treatment of Locally Advanced Non-Small Cell Lung Cancers.

Authors:  Andrew Hope; Maikel Verduin; Thomas J Dilling; Ananya Choudhury; Rianne Fijten; Leonard Wee; Hugo Jwl Aerts; Issam El Naqa; Ross Mitchell; Marc Vooijs; Andre Dekker; Dirk de Ruysscher; Alberto Traverso
Journal:  Cancers (Basel)       Date:  2021-05-14       Impact factor: 6.639

4.  T-staging pulmonary oncology from radiological reports using natural language processing: translating into a multi-language setting.

Authors:  J Martijn Nobel; Sander Puts; Jakob Weiss; Hugo J W L Aerts; Raymond H Mak; Simon G F Robben; André L A J Dekker
Journal:  Insights Imaging       Date:  2021-06-10
  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.