Evidence map›Paper›PMID 28269947›Full record

ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium2016

Ensembles of NLP Tools for Data Element Extraction from Clinical Notes.

Tsung-Ting Kuo, Pallavi Rao, Cleo Maehara, Son Doan, Juan D Chaparro, Michele E Day, Claudiu Farcas, Lucila Ohno-Machado, Chun-Nan Hsu

Abstract read
In one paragraph

Article in AMIA ... Annual Symposium proceedings. AMIA Symposium, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

  1. Generative AI models: the next anaesthetic agent?British journal of anaesthesia · 2025
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  2. Predicting positiveHeliyon · 2025
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  8. Different Data Mining Approaches Based Medical Text Data.Journal of healthcare engineering · 2021
    Review
  9. medExtractR: A targeted, customizable approach to medication extraction from electronic health records.Journal of the American Medical Informatics Association : JAMIA · 2020
    Article
  10. Privacy-preserving model learning on a blockchain network-of-networks.Journal of the American Medical Informatics Association : JAMIA · 2020
    Article
  11. Article
  12. Article
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

9 authors.

Tsung-Ting KuoUniversity of California San Diego, La Jolla, CA.
Pallavi RaoUniversity of California, Davis, CA.
Cleo MaeharaUniversity of California, Los Angeles, CA.
Son DoanUniversity of California San Diego, La Jolla, CA.
Juan D ChaparroUniversity of California San Diego, La Jolla, CA.
Michele E DayUniversity of California San Diego, La Jolla, CA.
Claudiu FarcasUniversity of California San Diego, La Jolla, CA.
Lucila Ohno-MachadoUniversity of California San Diego, La Jolla, CA.
Chun-Nan HsuUniversity of California San Diego, La Jolla, CA.

Funding

UC San Diego Clinical and Translational Research InstituteUL1TR001442 · NCATS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FIRESTEIN, GARY S, HOGARTH, MICHAEL · 2015 to 2024
$88.3M
Informatics for Integrating Biology/ the Bedside (RMI)U54LM008748 · NLM · BRIGHAM AND WOMEN'S HOSPITAL · PI KOHANE, ISAAC S. · 2004 to 2013
$39.0M
iDASH: Integrating Data for Analysis, Anonymization, and SharingU54HL108460 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI OHNO-MACHADO, LUCILA · 2010 to 2015
$19.1M
NCATS NIH HHS UL1 TR001442NHLBI NIH HHS U54 HL108460NLM NIH HHS U54 LM008748
6 · The paper itself

Abstract

Natural Language Processing (NLP) is essential for concept extraction from narrative text in electronic health records (EHR). To extract numerous and diverse concepts, such as data elements (i.e., important concepts related to a certain medical condition), a plausible solution is to combine various NLP tools into an ensemble to improve extraction performance. However, it is unclear to what extent ensembles of popular NLP tools improve the extraction of numerous and diverse concepts. Therefore, we built an NLP ensemble pipeline to synergize the strength of popular NLP tools using seven ensemble methods, and to quantify the improvement in performance achieved by ensembles in the extraction of data elements for three very different cohorts. Evaluation results show that the pipeline can improve the performance of NLP tools, but there is high variability depending on the cohort.

Indexed as

Electronic Health RecordsNatural Language ProcessingData CollectionHumansInformation Storage and Retrieval

Identifiers

PMID28269947
PMCPMC5333200

What OpenQuestion holds

Textmetadata
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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.