Evidence map›Paper›PMID 36572766›Full record

ArticleNPJ digital medicine2022

A large language model for electronic health records.

Xi Yang, Aokun Chen, Nima PourNejatian, Hoo Chang Shin, Kaleb E Smith, Christopher Parisien, Colin Compas, Cheryl Martin, Anthony B Costa, Mona G Flores and 9 more

Abstract read
In one paragraph

Article in NPJ digital medicine, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 390 papers, 4 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
390citing papers in PubMed, 4 pooled it
–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

390 citing papers in PubMed, 4 syntheses or guidelines pooled it.

  1. Pooled it
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  13. AI agents in cancer imaging: Concepts, advances, and clinical perspectives.Chinese journal of cancer research = Chung-kuo yen cheng yen chiu · 2026
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330 more citing papers are in PubMed but not listed here.

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

19 authors.

Xi YangDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.
Aokun ChenDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.
Nima PourNejatianNVIDIA, Santa Clara, CA, USA.
Hoo Chang ShinNVIDIA, Santa Clara, CA, USA.
Kaleb E SmithNVIDIA, Santa Clara, CA, USA.
Christopher ParisienNVIDIA, Santa Clara, CA, USA.
Colin CompasNVIDIA, Santa Clara, CA, USA.
Cheryl MartinNVIDIA, Santa Clara, CA, USA.
Anthony B CostaNVIDIA, Santa Clara, CA, USA.
Mona G FloresNVIDIA, Santa Clara, CA, USA.ORCID http://orcid.org/0000-0002-7362-3044
Ying ZhangResearch Computing, University of Florida, Gainesville, FL, USA.ORCID http://orcid.org/0000-0003-4210-2104
Tanja MagocIntegrated Data Repository Research Services, University of Florida, Gainesville, FL, USA.
Christopher A HarleDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.
Gloria LiporiIntegrated Data Repository Research Services, University of Florida, Gainesville, FL, USA.
Duane A MitchellLillian S. Wells Department of Neurosurgery, UF Clinical and Translational Science Institute, University of Florida, Gainesville, FL, USA.
William R HoganDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.ORCID http://orcid.org/0000-0002-9881-1017
Elizabeth A ShenkmanDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.ORCID http://orcid.org/0000-0003-4903-1804
Jiang BianDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA.ORCID http://orcid.org/0000-0002-2238-5429
Yonghui WuDepartment of Health Outcomes and Biomedical Informatics, College of Medicine, University of Florida, Gainesville, FL, USA. yonghui.wu@ufl.edu.ORCID http://orcid.org/0000-0002-6780-6135

Funding

Using social networks to map and evaluate team science across CTSA hubsUL1TR001427 · NCATS · UNIVERSITY OF FLORIDA · PI MITCHELL, DUANE A. · 2015 to 2024
$37.2M
The benefits and harms of lung cancer screening in FloridaR01CA246418 · NCI · UNIVERSITY OF FLORIDA · PI BIAN, JIANG, GUO, YI · 2020 to 2023
$1.7M
Advancing Drug Repositioning for Alzheimer’s Disease using Real-world DataR56AG069880 · NIA · UNIVERSITY OF FLORIDA · PI BIAN, JIANG, CHEN, YONG · 2021 to 2022
$1.6M
Advancing Interdisciplinary Science of Aging through Identification of Iatrogenic Complications: The UF EHR Clinical Data Infrastructure for Enhanced Patient Safety among the Elderly (UF-ECLIPSE)R21AG062884 · NIA · UNIVERSITY OF FLORIDA · PI INGIBJARGARDOTTIR BJARNADOTTIR, RAGNHILDUR, LUCERO, ROBERT J · 2019 to 2020
$415k
NCATS NIH HHS UL1 TR001427NCI NIH HHS R01 CA246418NIA NIH HHS R21 AG062884NIA NIH HHS R56 AG069880
6 · The paper itself

Abstract

There is an increasing interest in developing artificial intelligence (AI) systems to process and interpret electronic health records (EHRs). Natural language processing (NLP) powered by pretrained language models is the key technology for medical AI systems utilizing clinical narratives. However, there are few clinical language models, the largest of which trained in the clinical domain is comparatively small at 110 million parameters (compared with billions of parameters in the general domain). It is not clear how large clinical language models with billions of parameters can help medical AI systems utilize unstructured EHRs. In this study, we develop from scratch a large clinical language model-GatorTron-using >90 billion words of text (including >82 billion words of de-identified clinical text) and systematically evaluate it on five clinical NLP tasks including clinical concept extraction, medical relation extraction, semantic textual similarity, natural language inference (NLI), and medical question answering (MQA). We examine how (1) scaling up the number of parameters and (2) scaling up the size of the training data could benefit these NLP tasks. GatorTron models scale up the clinical language model from 110 million to 8.9 billion parameters and improve five clinical NLP tasks (e.g., 9.6% and 9.5% improvement in accuracy for NLI and MQA), which can be applied to medical AI systems to improve healthcare delivery. The GatorTron models are publicly available at: https://catalog.ngc.nvidia.com/orgs/nvidia/teams/clara/models/gatortron_og .

Identifiers

PMID36572766
PMCPMC9792464

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.