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Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts

The capabilities of natural language processing (NLP) methods have expanded significantly in recent years, and progress has been particularly driven by advances in data science and machine learning. However, NLP is still largely underused in patient-oriented clinical research and care (POCRC). A key...

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Autores principales: Sarker, Abeed, Al-Garadi, Mohammed Ali, Yang, Yuan-Chi, Choi, Jinho, Quyyumi, Arshed A, Martin, Greg S
Formato: Online Artículo Texto
Lenguaje:English
Publicado: JMIR Publications 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8512184/
https://www.ncbi.nlm.nih.gov/pubmed/34581670
http://dx.doi.org/10.2196/18471
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author Sarker, Abeed
Al-Garadi, Mohammed Ali
Yang, Yuan-Chi
Choi, Jinho
Quyyumi, Arshed A
Martin, Greg S
author_facet Sarker, Abeed
Al-Garadi, Mohammed Ali
Yang, Yuan-Chi
Choi, Jinho
Quyyumi, Arshed A
Martin, Greg S
author_sort Sarker, Abeed
collection PubMed
description The capabilities of natural language processing (NLP) methods have expanded significantly in recent years, and progress has been particularly driven by advances in data science and machine learning. However, NLP is still largely underused in patient-oriented clinical research and care (POCRC). A key reason behind this is that clinical NLP methods are typically developed, optimized, and evaluated with narrowly focused data sets and tasks (eg, those for the detection of specific symptoms in free texts). Such research and development (R&D) approaches may be described as problem oriented, and the developed systems perform specialized tasks well. As standalone systems, however, they generally do not comprehensively meet the needs of POCRC. Thus, there is often a gap between the capabilities of clinical NLP methods and the needs of patient-facing medical experts. We believe that to increase the practical use of biomedical NLP, future R&D efforts need to be broadened to a new research paradigm—one that explicitly incorporates characteristics that are crucial for POCRC. We present our viewpoint about 4 such interrelated characteristics that can increase NLP systems’ suitability for POCRC (3 that represent NLP system properties and 1 associated with the R&D process)—(1) interpretability (the ability to explain system decisions), (2) patient centeredness (the capability to characterize diverse patients), (3) customizability (the flexibility for adapting to distinct settings, problems, and cohorts), and (4) multitask evaluation (the validation of system performance based on multiple tasks involving heterogeneous data sets). By using the NLP task of clinical concept detection as an example, we detail these characteristics and discuss how they may result in the increased uptake of NLP systems for POCRC.
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spelling pubmed-85121842021-11-02 Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts Sarker, Abeed Al-Garadi, Mohammed Ali Yang, Yuan-Chi Choi, Jinho Quyyumi, Arshed A Martin, Greg S JMIR Med Inform Viewpoint The capabilities of natural language processing (NLP) methods have expanded significantly in recent years, and progress has been particularly driven by advances in data science and machine learning. However, NLP is still largely underused in patient-oriented clinical research and care (POCRC). A key reason behind this is that clinical NLP methods are typically developed, optimized, and evaluated with narrowly focused data sets and tasks (eg, those for the detection of specific symptoms in free texts). Such research and development (R&D) approaches may be described as problem oriented, and the developed systems perform specialized tasks well. As standalone systems, however, they generally do not comprehensively meet the needs of POCRC. Thus, there is often a gap between the capabilities of clinical NLP methods and the needs of patient-facing medical experts. We believe that to increase the practical use of biomedical NLP, future R&D efforts need to be broadened to a new research paradigm—one that explicitly incorporates characteristics that are crucial for POCRC. We present our viewpoint about 4 such interrelated characteristics that can increase NLP systems’ suitability for POCRC (3 that represent NLP system properties and 1 associated with the R&D process)—(1) interpretability (the ability to explain system decisions), (2) patient centeredness (the capability to characterize diverse patients), (3) customizability (the flexibility for adapting to distinct settings, problems, and cohorts), and (4) multitask evaluation (the validation of system performance based on multiple tasks involving heterogeneous data sets). By using the NLP task of clinical concept detection as an example, we detail these characteristics and discuss how they may result in the increased uptake of NLP systems for POCRC. JMIR Publications 2021-09-28 /pmc/articles/PMC8512184/ /pubmed/34581670 http://dx.doi.org/10.2196/18471 Text en ©Abeed Sarker, Mohammed Ali Al-Garadi, Yuan-Chi Yang, Jinho Choi, Arshed A Quyyumi, Greg S Martin. Originally published in JMIR Medical Informatics (https://medinform.jmir.org), 28.09.2021. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work, first published in JMIR Medical Informatics, is properly cited. The complete bibliographic information, a link to the original publication on https://medinform.jmir.org/, as well as this copyright and license information must be included.
spellingShingle Viewpoint
Sarker, Abeed
Al-Garadi, Mohammed Ali
Yang, Yuan-Chi
Choi, Jinho
Quyyumi, Arshed A
Martin, Greg S
Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title_full Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title_fullStr Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title_full_unstemmed Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title_short Defining Patient-Oriented Natural Language Processing: A New Paradigm for Research and Development to Facilitate Adoption and Use by Medical Experts
title_sort defining patient-oriented natural language processing: a new paradigm for research and development to facilitate adoption and use by medical experts
topic Viewpoint
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8512184/
https://www.ncbi.nlm.nih.gov/pubmed/34581670
http://dx.doi.org/10.2196/18471
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