Automated cell segmentation and spot detection in fluorescence in situ hybridization staining to assess HER2 status in breast cancer

Sukru Burak Cetin, Fariba D. Khameneh, Ercan Alp Serteli, Sercan Cayir, Gokhan Hatipoglu, Mustafa Kamasak, Samet Ayalti, Salar Razavi, Yakup Budancamanak, Gulsah Ozsoy

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

1 Citation (Scopus)

Abstract

Fluorescence in situ hybridization (FISH) approach is constituted of a pair of complementary techniques for precisely detecting gene amplification and over-expression which are regarded as signs of cancer in patients. Signal detection of FISH whole slides is extremely significant as enables to detect amplification situation. However, nuclei detection and segmentation of FISH slides through microscopic images is tedious and time-consuming for pathologists to evaluate. Furthermore, FISH specimen slides provided at pathological laboratories are frequently noisy and not analyzable entirely. Therefore, traditional visual methods require more time due to fact that they are exceedingly reliant on human view. They require more time and attention in the evaluation process by pathologists. Nowadays, computer-aided FISH solutions bring radical remedies in this particular problematic area of pathology. Although computer-aided FISH solutions have many advantages, they have some drawbacks due to the variability of staining images. In this study, we present an accurate cell nuclei segmentation and signal detection methodology to detect red and green spots localized in segmented cells. The problems in the visual experiments as well as the assessment of amplification state of the evaluated cases are presented, which corresponds to the visual scoring of pathologists.

Original languageEnglish
Title of host publication26th IEEE Signal Processing and Communications Applications Conference, SIU 2018
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages1-4
Number of pages4
ISBN (Electronic)9781538615010
DOIs
Publication statusPublished - 5 Jul 2018
Event26th IEEE Signal Processing and Communications Applications Conference, SIU 2018 - Izmir, Turkey
Duration: 2 May 20185 May 2018

Publication series

Name26th IEEE Signal Processing and Communications Applications Conference, SIU 2018

Conference

Conference26th IEEE Signal Processing and Communications Applications Conference, SIU 2018
Country/TerritoryTurkey
CityIzmir
Period2/05/185/05/18

Bibliographical note

Publisher Copyright:
© 2018 IEEE.

Keywords

  • Biomarker
  • Cell segmentation
  • Fluorescence in situ hybridization (FISH)
  • Image processing
  • Region merging
  • Tile-based processing

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