Myelin segmentation in fluorescence microscopy images

Sibel Cimen Yetis, Dursun A. Ekinci, Ertan Cakir, Ender M. Eksioglu, Umut E. Ayten, Abdulkerim Capar, B. Ugur Toreyin, Bilal E. Kerman

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


Myelin sheath, wrapped around axons, allows rapid neural signal transmission, and degeneration of myelin causes various neurodegenerative diseases, such as, Multiple Sclerosis (MS). For candidate drug discovery, it is essential to quantify myelin. This requires tedious expert labor comprising myelin labelling on microscopic fluorescence images, usually acquired by confocal microscopes. In this study, semantic segmentation based automatic myelin segmentation on fluorescence microscopy images was introduced. Three-channel and three-dimensional fluorescence images of mouse stem cell derived neuron and oligodendrocyte co-cultures were labeled by an expert. The images were divided into patches for training and the labels corresponded to each patch were acquired. A data set of 11552 patches was used for training to identify myelin and non-myelin regions. In the data set, myelin detection performances of semantic segmentation technique were evaluated using 3 different learning algorithms. The highest accuracy value of 97.32 percent was achieved by using 'RMSprop' learning algorithm with a group size of 8 and after 250 epochs. Results suggested that the proposed myelin segmentation method was suitable for detecting myelin. Thus, the outlined myelin segmentation method has the potential to be incorporated into remyelination drug screens.

Translated title of the contributionFloresan mikroskop görüntülerinde miyelin segmentasyonu
Original languageEnglish
Title of host publicationTIPTEKNO 2019 - Tip Teknolojileri Kongresi
PublisherInstitute of Electrical and Electronics Engineers Inc.
ISBN (Electronic)9781728124209
Publication statusPublished - Oct 2019
Event2019 Medical Technologies Congress, TIPTEKNO 2019 - Izmir, Turkey
Duration: 3 Oct 20195 Oct 2019

Publication series

NameTIPTEKNO 2019 - Tip Teknolojileri Kongresi


Conference2019 Medical Technologies Congress, TIPTEKNO 2019

Bibliographical note

Publisher Copyright:
© 2019 IEEE.


  • Fluorescence microscopy images
  • Myelin
  • Segmentation
  • Semantic segmentation


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