Towards topological correct segmentation of macular OCT from cascaded FCNs

Yufan He, Aaron Carass, Yeyi Yun, Can Zhao, Bruno M. Jedynak, Sharon D. Solomon, Shiv Saidha, Peter A. Calabresi, Jerry L. Prince

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Optical coherence tomography (OCT) is used to produce high resolution depth images of the retina and is now the standard of care for in-vivo ophthalmological assessment. In particular, OCT is used to study the changes in layer thickness across various pathologies. The automated image analysis of these OCT images has primarily been performed with graph based methods. Despite the preeminence of graph based methods, deep learning based approaches have begun to appear within the literature. Unfortunately, they cannot currently guarantee the strict biological tissue order found in human retinas. We propose a cascaded fully convolutional network (FCN) framework to segment eight retina layers and preserve the topological relationships between the layers. The first FCN serves as a segmentation network which takes retina images as input and outputs the segmentation probability maps of the layers. We next perform a topology check on the segmentation and those patches that do not satisfy the topology criterion are passed to a second FCN for topology correction. The FCNs have been trained on Heidelberg Spectralis images and validated on both Heidelberg Spectralis and Zeiss Cirrus images.

Original languageEnglish (US)
Title of host publicationFetal, Infant and Ophthalmic Medical Image Analysis - International Workshop, FIFI 2017 and 4th International Workshop, OMIA 2017 Held in Conjunction with MICCAI 2017, Proceedings
EditorsM. Jorge Cardoso, Tal Arbel
PublisherSpringer Verlag
Pages202-209
Number of pages8
ISBN (Print)9783319675602
DOIs
StatePublished - 2017
EventInternational Workshop on Fetal and Infant Image Analysis, FIFI 2017 and 4th International Workshop on Ophthalmic Medical Image Analysis, OMIA 2017 held in Conjunction with 20th International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2017 - Quebec City, Canada
Duration: Sep 14 2017Sep 14 2017

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume10554 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

OtherInternational Workshop on Fetal and Infant Image Analysis, FIFI 2017 and 4th International Workshop on Ophthalmic Medical Image Analysis, OMIA 2017 held in Conjunction with 20th International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2017
CountryCanada
CityQuebec City
Period9/14/179/14/17

Keywords

  • Fully convolutional network
  • Retina OCT
  • Topology preserving

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)

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