Evidence map›Paper›PMID 34581670›Full record

ArticleJMIR medical informatics2021

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

Abeed Sarker, Mohammed Ali Al-Garadi, Yuan-Chi Yang, Jinho Choi, Arshed A Quyyumi, Greg S Martin

Abstract read
In one paragraph

Article in JMIR medical informatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Abeed SarkerDepartment of Biomedical Informatics, School of Medicine, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0001-7358-544X
Mohammed Ali Al-GaradiDepartment of Biomedical Informatics, School of Medicine, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0002-6991-2687
Yuan-Chi YangDepartment of Biomedical Informatics, School of Medicine, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0001-5441-8371
Jinho ChoiDepartment of Computer Science, College of Arts and Sciences, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0003-2693-6934
Arshed A QuyyumiEmory Clinical Cardiovascular Institute, Division of Cardiology, Department of Medicine, School of Medicine, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0002-8166-679X
Greg S MartinPredictive Health Institute and Center for Health Discovery and Well Being, Department of Medicine, School of Medicine, Emory University, Atlanta, GA, United States.ORCID https://orcid.org/0000-0002-9684-7593

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

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.

Indexed as

evidence-based medicinemedical informaticsnatural language processingpatient-centered caretext mining

Identifiers

PMID34581670
PMCPMC8512184

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.