Evidence map›Paper›PMID 31760194›Full record

ArticleMedical image analysis2020

Multi-resolution convolutional neural networks for fully automated segmentation of acutely injured lungs in multiple species.

Sarah E Gerard, Jacob Herrmann, David W Kaczka, Guido Musch, Ana Fernandez-Bustamante, Joseph M Reinhardt

Open access · greenAbstract read
In one paragraph

Article in Medical image analysis, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.

0numbers the graph read from it
0cells of the map it votes in
46citing papers in PubMed
8.5field-weighted citation impact, top 2% 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

46 citing papers in PubMed, 86 citations in OpenAlex.

  1. Review
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  6. Review
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  8. Article
  9. Review
  10. Forward Computational Modeling of Respiratory Airflow.Applied sciences (Basel, Switzerland) · 2024
    Article
  11. Observational
  12. Article
  13. Imaging the Lung in ARDS: A Primer.Respiratory care · 2024
    Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
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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 at 3 institutions in 1 country.

Sarah E GerardRoy J. Carver Department of Biomedical Engineering, University of Iowa, Iowa City, IA, USA.
Jacob HerrmannRoy J. Carver Department of Biomedical Engineering, University of Iowa, Iowa City, IA, USA; Department of Anesthesia, University of Iowa, Iowa City, IA, USA.
David W KaczkaRoy J. Carver Department of Biomedical Engineering, University of Iowa, Iowa City, IA, USA; Department of Radiology, University of Iowa, Iowa City, IA, USA; Department of Anesthesia, University of Iowa, Iowa City, IA, USA.
Guido MuschDepartment of Anesthesiology, Washington University, St. Louis, MO, USA.
Ana Fernandez-BustamanteDepartment of Anesthesiology, University of Colorado School of Medicine, Aurora, CO, USA.
Joseph M ReinhardtRoy J. Carver Department of Biomedical Engineering, University of Iowa, Iowa City, IA, USA; Department of Radiology, University of Iowa, Iowa City, IA, USA. Electronic address: joe-reinhardt@uiowa.edu.
University of Iowa · USUniversity of Colorado Denver · USWashington University in St. Louis · US

Funding

Genetic Epidemiology of COPDU01HL089897 · NHLBI · NATIONAL JEWISH HEALTH · PI CRAPO, JAMES D · 2007 to 2021
$56.9M
Metabolomic signatures of empysema and COPD progression in the COPDGene cohortR01HL089897 · NHLBI · NATIONAL JEWISH HEALTH · PI CRAPO, JAMES D · 2012 to 2016
$31.1M
Vector Core-Core 2P30DK054759 · NIDDK · UNIVERSITY OF IOWA · PI Amy Leanne Ryan · 1998 to 2026
$30.5M
Genetic Epidemiology of COPDU01HL089856 · NHLBI · BRIGHAM AND WOMEN'S HOSPITAL · PI SILVERMAN, EDWIN K · 2007 to 2021
$20.7M
(2 of 2) Genetic Epidemiology of COPDR01HL089856 · NHLBI · BRIGHAM AND WOMEN'S HOSPITAL · PI SILVERMAN, EDWIN K · 2012 to 2016
$18.9M
Lung Biomechanics and Disease Progression in SPIROMICSR01HL142625 · NHLBI · UNIVERSITY OF IOWA · PI REINHARDT, JOSEPH M · 2018 to 2021
$2.2M
Effect of Prone Position on Ventilator-Induced Lung InjuryR01HL094639 · NHLBI · WASHINGTON UNIVERSITY · PI MUSCH, GUIDO · 2010 to 2014
$2.1M
Predicting Pulmonary Function Change to Improve Radiation Planning and OutcomeR01CA166703 · NCI · UNIVERSITY OF WISCONSIN-MADISON · PI BAYOUTH, JOHN · 2013 to 2017
$1.9M
Longitudinal, computer assisted analysis in IPFR01HL091743 · NHLBI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI FLAHERTY, KEVIN R · 2008 to 2011
$1.6M
1/2: An Anesthesia-Centered Bundle to Reduce Postoperative Pulmonary Complications: The PRIME-AIR StudyUG3HL140177 · NHLBI · MASSACHUSETTS GENERAL HOSPITAL · PI FERNANDEZ-BUSTAMANTE, ANA, VIDAL MELO, MARCOS F · 2019 to 2019
$1.2M
Device for Multi-Frequency Oscillatory Ventilation in Adult Patients with the Acute Respiratory Distress SyndromeR41HL140640 · NHLBI · OSCILLAVENT, INC. · PI KACZKA, DAVID W. · 2018 to 2018
$225k
NCI NIH HHS R01 CA166703NHLBI NIH HHS HHSN268200900013CNHLBI NIH HHS HHSN268200900014CNHLBI NIH HHS HHSN268200900015CNHLBI NIH HHS HHSN268200900016CNHLBI NIH HHS HHSN268200900017CNHLBI NIH HHS HHSN268200900018CNHLBI NIH HHS HHSN268200900019CNHLBI NIH HHS HHSN268200900020CNHLBI NIH HHS R01 HL089856NHLBI NIH HHS R01 HL089897NHLBI NIH HHS R01 HL091743NHLBI NIH HHS R01 HL094639NHLBI NIH HHS R01 HL142625NHLBI NIH HHS R41 HL140640NHLBI NIH HHS U01 HL089856NHLBI NIH HHS U01 HL089897NHLBI NIH HHS UG3 HL140177NIDDK NIH HHS P30 DK054759
6 · The paper itself

Abstract

Segmentation of lungs with acute respiratory distress syndrome (ARDS) is a challenging task due to diffuse opacification in dependent regions which results in little to no contrast at the lung boundary. For segmentation of severely injured lungs, local intensity and texture information, as well as global contextual information, are important factors for consistent inclusion of intrapulmonary structures. In this study, we propose a deep learning framework which uses a novel multi-resolution convolutional neural network (ConvNet) for automated segmentation of lungs in multiple mammalian species with injury models similar to ARDS. The multi-resolution model eliminates the need to tradeoff between high-resolution and global context by using a cascade of low-resolution to high-resolution networks. Transfer learning is used to accommodate the limited number of training datasets. The model was initially pre-trained on human CT images, and subsequently fine-tuned on canine, porcine, and ovine CT images with lung injuries similar to ARDS. The multi-resolution model was compared to both high-resolution and low-resolution networks alone. The multi-resolution model outperformed both the low- and high-resolution models, achieving an overall mean Jacaard index of 0.963 ± 0.025 compared to 0.919 ± 0.027 and 0.950 ± 0.036, respectively, for the animal dataset (N=287). The multi-resolution model achieves an overall average symmetric surface distance of 0.438 ± 0.315 mm, compared to 0.971 ± 0.368 mm and 0.657 ± 0.519 mm for the low-resolution and high-resolution models, respectively. We conclude that the multi-resolution model produces accurate segmentations in severely injured lungs, which is attributed to the inclusion of both local and global features.

Indexed as

Neural Networks, ComputerPattern Recognition, AutomatedTomography, X-Ray ComputedAnimalsDatasets as TopicDeep LearningDisease Models, AnimalDogsHumansRespiratory Distress SyndromeSheep, DomesticSwineComputed tomographyDeep learningSegmentation

Identifiers

PMID31760194
PMCPMC6980773
OpenAlexW2983341131

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.