Evidence map›Paper›PMID 32023271›Full record

ArticlePloS one2020

Machine learning for syndromic surveillance using veterinary necropsy reports.

Nathan Bollig, Lorelei Clarke, Elizabeth Elsmo, Mark Craven

Abstract read
In one paragraph

Article in PloS one, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed, 1 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

11 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Association between case signalment and disease diagnosis in urinary bladder disease in Australian cats and dogs.Journal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc · 2021
    Article
  9. Review
  10. Article
  11. 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

4 authors.

Nathan BolligDepartment of Computer Sciences, University of Wisconsin-Madison, Madison, WI, United States of America.ORCID 0000-0002-0393-6395
Lorelei ClarkeWisconsin Veterinary Diagnostic Laboratory, University of Wisconsin-Madison, Madison, WI, United States of America.
Elizabeth ElsmoWisconsin Veterinary Diagnostic Laboratory, University of Wisconsin-Madison, Madison, WI, United States of America.
Mark CravenDepartment of Computer Sciences, University of Wisconsin-Madison, Madison, WI, United States of America.

Funding

University of Wisconsin Institute for Clinical and Translational ResearchUL1TR002373 · NCATS · UNIVERSITY OF WISCONSIN-MADISON · PI ELIZABETH S BURNSIDE, Allan R. Brasier · 2017 to 2026
$75.9M
Institutional Clinical and Translational Science AwardUL1TR000427 · NCATS · UNIVERSITY OF WISCONSIN-MADISON · PI DREZNER, MARC KENNETH · 2012 to 2016
$32.2M
Comparative Biomedical Sciences Training ProgramT32OD010423 · OD · UNIVERSITY OF WISCONSIN-MADISON · PI Marulasiddappa Suresh · 2012 to 2026
$5.0M
NCATS NIH HHS UL1 TR000427NCATS NIH HHS UL1 TR002373NIH HHS T32 OD010423
6 · The paper itself

Abstract

The use of natural language data for animal population surveillance represents a valuable opportunity to gather information about potential disease outbreaks, emerging zoonotic diseases, or bioterrorism threats. In this study, we evaluate machine learning methods for conducting syndromic surveillance using free-text veterinary necropsy reports. We train a system to detect if a necropsy report from the Wisconsin Veterinary Diagnostic Laboratory contains evidence of gastrointestinal, respiratory, or urinary pathology. We evaluate the performance of several machine learning algorithms including deep learning with a long short-term memory network. Although no single algorithm was superior, random forest using feature vectors of TF-IDF statistics ranked among the top-performing models with F1 scores of 0.923 (gastrointestinal), 0.960 (respiratory), and 0.888 (urinary). This model was applied to over 33,000 necropsy reports and was used to describe temporal and spatial features of diseases within a 14-year period, exposing epidemiological trends and detecting a potential focus of gastrointestinal disease from a single submitting producer in the fall of 2016.

Indexed as

Machine LearningAnimalsArea Under CurveDeep LearningGastrointestinal DiseasesLogistic ModelsLung DiseasesROC CurveSupervised Machine LearningUrologic Diseases

Identifiers

PMID32023271
PMCPMC7001958

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.