Evidence map›Paper›PMID 28687199›Full record

ArticleJournal of biomedical informatics2017

Leveraging syntax to better capture the semantics of elliptical coordinated compound noun phrases.

Catherine Blake, Tom Rindflesch

Abstract read
In one paragraph

Article in Journal of biomedical informatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
1.0field-weighted citation impact, top 17% of its field
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

4 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. A graph-based method for reconstructing entities from coordination ellipsis in medical text.Journal of the American Medical Informatics Association : JAMIA · 2020
    Article
  3. Article
  4. 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

2 authors at 2 institutions in 1 country.

Catherine BlakeSchool of Information Sciences, University of Illinois at Urbana Champaign, USA; National Library of Medicine, NIH, Bethesda, USA. Electronic address: clblake@illinois.edu.
Tom RindfleschNational Library of Medicine, NIH, Bethesda, USA.
United States National Library of Medicine · USUniversity of Illinois Urbana-Champaign · US

Funding

Intramural NIH HHS Z99 LM999999
6 · The paper itself

Abstract

Full-text scientific articles are increasingly available, but capturing the meaning conveyed within an article automatically remains a bottleneck for semantic search and reasoning systems. In this paper we consider elliptical coordinated compound noun phrases that authors use to save space in an article. Systems that do not attend to coordination would incorrectly interpret "breast or lung cancer" as a body part (breast) and a disease (lung cancer) rather than two diseases. The algorithmic approach introduced in this paper uses a generate-and-test strategy where candidate expansions for forward, backward and complex ellipses are generated from syntactic dependencies. Dependencies are also used to create a dictionary of non-coordinated noun phrases that is used during the test phrase. Experiments on 21,280 full-text articles show that more than a million noun phrases were impacted by coordinated ellipses. The system achieves 73.07% precision, 75.38% recall, 74.23% F-score and 94.72% accuracy for new noun phrases in the development set. The precision was higher for backward (82.62 vs. 78.63) and forward expansions (64.82 vs. 60.17) and lower for complex expansions (63.41 vs. 72.59) in a test set. On average 10.79% of all noun phrases would be missed if coordination were not resolved, which corresponds to 48 new noun phrases per article in the journal Carcinogenesis, 52 new phrases per article in Diabetes, and 56 new phrases per article in Endocrinology. Results also show coordinated ellipses are more prevalent in abstracts (12.31% of all noun phrases) than in the body of an article (10.70%). To further test the generalizability of this approach the system (without modification) was used on two new collections.

Indexed as

Data MiningNatural Language ProcessingSemanticsHumansLanguagePeriodicals as TopicElliptical coordinated compound noun phrasesEntity recognitionNatural language processingNoun phrase semanticsText mining

Identifiers

PMID28687199
PMCPMC13352489
OpenAlexW2729011435

What OpenQuestion holds

Textmetadata
LicenceTDM
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.