A multi-spectral myelin annotation tool for machine learning based myelin quantification [version 1; peer review: 1 not approved]

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Çapar A., ÇİMEN S., Aladağ Z., Ekinci D. A., AYTEN U. E., KERMAN B. E., ...Daha Fazla

F1000Research, cilt.9, ss.1-10, 2021 (Scopus) identifier

  • Yayın Türü: Makale / Tam Makale
  • Cilt numarası: 9
  • Basım Tarihi: 2021
  • Doi Numarası: 10.12688/f1000research.27139.1
  • Dergi Adı: F1000Research
  • Derginin Tarandığı İndeksler: Scopus, EMBASE, MEDLINE, Directory of Open Access Journals
  • Sayfa Sayıları: ss.1-10
  • Anahtar Kelimeler: fluorescence images, image analysis, machine learning, myelin annotation tool, myelin quantification
  • İstanbul Medipol Üniversitesi Adresli: Evet

Özet

Myelin is an essential component of the nervous system and myelin damage causes demyelination diseases. Myelin is a sheet of oligodendrocyte membrane wrapped around the neuronal axon. In the fluorescent images, experts manually identify myelin by colocalization of oligodendrocyte and axonal membranes that fit certain shape and size criteria. Because myelin wriggles along x-y-z axes, machine learning is ideal for its segmentation. However, machinelearning methods, especially convolutional neural networks (CNNs), require a high number of annotated images, which necessitates expert labor. To facilitate myelin annotation, we developed a workflow and a software for myelin ground truth extraction from multi-spectral fluorescent images. Additionally, we shared a set of myelin ground truths annotated using this workflow