Yıl: 2021 Cilt: 29 Sayı: Özel sayı 1 Sayfa Aralığı: 2855 - 2868 Metin Dili: İngilizce DOI: 10.3906/elk-2105-244 İndeks Tarihi: 29-06-2022

Improved cell segmentation using deep learning in label-free optical microscopy images

Öz:
The recently popular deep neural networks (DNNs) have a significant effect on the improvement of segmentation accuracy from various perspectives, including robustness and completeness in comparison to conventional methods. We determined that the naive U-Net has some lacks in specific perspectives and there is high potential for further enhancements on the model. Therefore, we employed some modifications in different folds of the U-Net to overcome this problem. Based on the probable opportunity for improvement, we develop a novel architecture by using an alternative feature extractor in the encoder of U-Net and replacing the plain blocks with residual blocks in the decoder. This alteration makes the model superconvergent yielding improved performance results on two challenging optical microscopy image series: a phase-contrast dataset of our own (MDA-MB-231) and a brightfield dataset from a well-known challenge (DSB2018). We utilized the U-Net with pretrained ResNet-18 as the encoder for the segmentation task. Hence, following the modifications, we redesign a novel skip-connection to reduce the semantic gap between the encoder and the decoder. The proposed skip-connection increases the accuracy of the model on both datasets. The proposed segmentation approach results in Jaccard Index values of 85.0% and 89.2% on the DSB2018 and MDA-MB-231 datasets, respectively. The results reveal that our method achieves competitive results compared to the state-of-the-art approaches and surpasses the performance of baseline approaches.
Anahtar Kelime:

Belge Türü: Makale Makale Türü: Araştırma Makalesi Erişim Türü: Erişime Açık
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APA Ayanzadeh A, Yalcin-Ozuysal O, Pesen Okvur D, Onal S, Toreyin B, Unay D (2021). Improved cell segmentation using deep learning in label-free optical microscopy images. , 2855 - 2868. 10.3906/elk-2105-244
Chicago Ayanzadeh Aydin,Yalcin-Ozuysal Ozden,Pesen Okvur Devrim,Onal Sevgi,Toreyin Behcet Ugur,Unay Devrim Improved cell segmentation using deep learning in label-free optical microscopy images. (2021): 2855 - 2868. 10.3906/elk-2105-244
MLA Ayanzadeh Aydin,Yalcin-Ozuysal Ozden,Pesen Okvur Devrim,Onal Sevgi,Toreyin Behcet Ugur,Unay Devrim Improved cell segmentation using deep learning in label-free optical microscopy images. , 2021, ss.2855 - 2868. 10.3906/elk-2105-244
AMA Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D Improved cell segmentation using deep learning in label-free optical microscopy images. . 2021; 2855 - 2868. 10.3906/elk-2105-244
Vancouver Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D Improved cell segmentation using deep learning in label-free optical microscopy images. . 2021; 2855 - 2868. 10.3906/elk-2105-244
IEEE Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D "Improved cell segmentation using deep learning in label-free optical microscopy images." , ss.2855 - 2868, 2021. 10.3906/elk-2105-244
ISNAD Ayanzadeh, Aydin vd. "Improved cell segmentation using deep learning in label-free optical microscopy images". (2021), 2855-2868. https://doi.org/10.3906/elk-2105-244
APA Ayanzadeh A, Yalcin-Ozuysal O, Pesen Okvur D, Onal S, Toreyin B, Unay D (2021). Improved cell segmentation using deep learning in label-free optical microscopy images. Turkish Journal of Electrical Engineering and Computer Sciences, 29(Özel sayı 1), 2855 - 2868. 10.3906/elk-2105-244
Chicago Ayanzadeh Aydin,Yalcin-Ozuysal Ozden,Pesen Okvur Devrim,Onal Sevgi,Toreyin Behcet Ugur,Unay Devrim Improved cell segmentation using deep learning in label-free optical microscopy images. Turkish Journal of Electrical Engineering and Computer Sciences 29, no.Özel sayı 1 (2021): 2855 - 2868. 10.3906/elk-2105-244
MLA Ayanzadeh Aydin,Yalcin-Ozuysal Ozden,Pesen Okvur Devrim,Onal Sevgi,Toreyin Behcet Ugur,Unay Devrim Improved cell segmentation using deep learning in label-free optical microscopy images. Turkish Journal of Electrical Engineering and Computer Sciences, vol.29, no.Özel sayı 1, 2021, ss.2855 - 2868. 10.3906/elk-2105-244
AMA Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D Improved cell segmentation using deep learning in label-free optical microscopy images. Turkish Journal of Electrical Engineering and Computer Sciences. 2021; 29(Özel sayı 1): 2855 - 2868. 10.3906/elk-2105-244
Vancouver Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D Improved cell segmentation using deep learning in label-free optical microscopy images. Turkish Journal of Electrical Engineering and Computer Sciences. 2021; 29(Özel sayı 1): 2855 - 2868. 10.3906/elk-2105-244
IEEE Ayanzadeh A,Yalcin-Ozuysal O,Pesen Okvur D,Onal S,Toreyin B,Unay D "Improved cell segmentation using deep learning in label-free optical microscopy images." Turkish Journal of Electrical Engineering and Computer Sciences, 29, ss.2855 - 2868, 2021. 10.3906/elk-2105-244
ISNAD Ayanzadeh, Aydin vd. "Improved cell segmentation using deep learning in label-free optical microscopy images". Turkish Journal of Electrical Engineering and Computer Sciences 29/Özel sayı 1 (2021), 2855-2868. https://doi.org/10.3906/elk-2105-244