Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Automated Deep Learning-based Multi-class Fluid Segmentation in Swept-Source Optical Coherence Tomography Images

View ORCID ProfileJonathan D. Oakley, Simrat K. Sodhi, View ORCID ProfileDaniel B. Russakoff, View ORCID ProfileNetan Choudhry
doi: https://doi.org/10.1101/2020.09.01.278259
Jonathan D. Oakley
1Voxeleron LLC, San Francisco, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Jonathan D. Oakley
  • For correspondence: jonathan@voxeleron.com
Simrat K. Sodhi
2University of Cambridge, Cambridge, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Daniel B. Russakoff
1Voxeleron LLC, San Francisco, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Daniel B. Russakoff
Netan Choudhry
3Vitreous Retina Macula Specialists of Toronto, Etobicoke, ON, Canada
4Department of Ophthalmology & Visual Sciences, University of Toronto, Toronto, ON Canada
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Netan Choudhry
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Preview PDF
Loading

Abstract

Purpose To evaluate the performance of a deep learning-based, fully automated, multi-class, macular fluid segmentation algorithm relative to expert annotations in a heterogeneous population of confirmed wet age-related macular degeneration (wAMD) subjects.

Methods Twenty-two swept-source optical coherence tomography (SS-OCT) volumes of the macula from 22 from different individuals with wAMD were manually annotated by two expert graders. These results were compared using cross-validation (CV) to automated segmentations using a deep learning-based algorithm encoding spatial information about retinal tissue as an additional input to the network. The algorithm detects and delineates fluid regions in the OCT data, differentiating between intra- and sub-retinal fluid (IRF, SRF), as well as fluid resulting from in serous pigment epithelial detachments (PED). Standard metrics for fluid detection and quantification were used to evaluate performance.

Results The per slice receiver operating characteristic (ROC) area under the curves (AUCs) for each of these fluid types were 0.90, 0.94 and 0.94 for IRF, SRF and PED, respectively. Per volume results were 0.94 and 0.88 for IRF and PED (SRF being present in all cases). The correlation of fluid volume between the expert graders and the algorithm were 0.99 for IRF, 0.99 for SRF and 0.82 for PED.

Conclusions Automated, deep learning-based segmentation is able to accurately detect and quantify different macular fluid types in SS-OCT data on par with expert graders.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-ND 4.0 International license.
Back to top
PreviousNext
Posted September 02, 2020.
Download PDF
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Automated Deep Learning-based Multi-class Fluid Segmentation in Swept-Source Optical Coherence Tomography Images
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Automated Deep Learning-based Multi-class Fluid Segmentation in Swept-Source Optical Coherence Tomography Images
Jonathan D. Oakley, Simrat K. Sodhi, Daniel B. Russakoff, Netan Choudhry
bioRxiv 2020.09.01.278259; doi: https://doi.org/10.1101/2020.09.01.278259
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
Automated Deep Learning-based Multi-class Fluid Segmentation in Swept-Source Optical Coherence Tomography Images
Jonathan D. Oakley, Simrat K. Sodhi, Daniel B. Russakoff, Netan Choudhry
bioRxiv 2020.09.01.278259; doi: https://doi.org/10.1101/2020.09.01.278259

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Bioinformatics
Subject Areas
All Articles
  • Animal Behavior and Cognition (4239)
  • Biochemistry (9167)
  • Bioengineering (6801)
  • Bioinformatics (24061)
  • Biophysics (12154)
  • Cancer Biology (9564)
  • Cell Biology (13822)
  • Clinical Trials (138)
  • Developmental Biology (7656)
  • Ecology (11736)
  • Epidemiology (2066)
  • Evolutionary Biology (15539)
  • Genetics (10670)
  • Genomics (14357)
  • Immunology (9509)
  • Microbiology (22897)
  • Molecular Biology (9124)
  • Neuroscience (49107)
  • Paleontology (357)
  • Pathology (1487)
  • Pharmacology and Toxicology (2581)
  • Physiology (3851)
  • Plant Biology (8351)
  • Scientific Communication and Education (1473)
  • Synthetic Biology (2301)
  • Systems Biology (6205)
  • Zoology (1302)