Classification of DNA damages on segmented comet assay images using convolutional neural network

Atila Ü., BAYDİLLİ Y. Y., Sehirli E., Turan M. K.

Computer Methods and Programs in Biomedicine, cilt.186, 2020 (SCI-Expanded) identifier identifier

  • Yayın Türü: Makale / Tam Makale
  • Cilt numarası: 186
  • Basım Tarihi: 2020
  • Doi Numarası: 10.1016/j.cmpb.2019.105192
  • Dergi Adı: Computer Methods and Programs in Biomedicine
  • Derginin Tarandığı İndeksler: Science Citation Index Expanded (SCI-EXPANDED), Scopus, Academic Search Premier, PASCAL, Applied Science & Technology Source, BIOSIS, Biotechnology Research Abstracts, Compendex, Computer & Applied Sciences, EMBASE, INSPEC, MEDLINE
  • Anahtar Kelimeler: Comet assay, Convolutional neural Network, Deep learning, DNA damage
  • Hakkari Üniversitesi Adresli: Hayır

Özet

Background and Objective: Identification and quantification of DNA damage is a very significant subject in biomedical research area which still needs more robust and effective methods. One of the cheapest, easy to use and most successful method for DNA damage analyses is comet assay. In this study, performance of Convolutional Neural Network was examined on quantification of DNA damage using comet assay images and was compared to other methods in the literature. Methods: 796 single comet grayscale images with 170 x 170 resolution labeled by an expert and classified into 4 classes each having approximately 200 samples as G0 (healthy), G1 (poorly defective), G2 (defective) and G3 (very defective) were utilized. 120 samples were used as test dataset and the rest were used in data augmentation process to achieve better performance with training of Convolutional Neural Network. The augmented data having a total of 9995 images belonging to four classes were used as network training data set. Results: The proposed model, which was not dependent to pre-processing parameters of image processing for DNA damage classification, was able to classify comet images into 4 classes with an overall accuracy rate of 96.1%. Conclusions: This paper primarily focuses on features and usage of Convolutional Neural Network as a novel method to classify comet objects on segmented comet assay images.