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  • 1
    Publication Date: 2022-08-17
    Description: Living cell segmentation from bright-field light microscopy images is challenging due to the image complexity and temporal changes in the living cells. Recently developed deep learning (DL)-based methods became popular in medical and microscopy image segmentation tasks due to their success and promising outcomes. The main objective of this paper is to develop a deep learning, U-Net-based method to segment the living cells of the HeLa line in bright-field transmitted light microscopy. To find the most suitable architecture for our datasets, a residual attention U-Net was proposed and compared with an attention and a simple U-Net architecture. The attention mechanism highlights the remarkable features and suppresses activations in the irrelevant image regions. The residual mechanism overcomes with vanishing gradient problem. The Mean-IoU score for our datasets reaches 0.9505, 0.9524, and 0.9530 for the simple, attention, and residual attention U-Net, respectively. The most accurate semantic segmentation results was achieved in the Mean-IoU and Dice metrics by applying the residual and attention mechanisms together. The watershed method applied to this best – Residual Attention – semantic segmentation result gave the segmentation with the specific information for each cell.
    Language: English
    Type: info:eu-repo/semantics/article
    Format: application/pdf
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  • 2
    Publication Date: 2022-08-19
    Type: info:eu-repo/semantics/other
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  • 3
    Publication Date: 2024-02-08
    Description: Inland water bodies play a vital role at all scales in the terrestrial water balance and Earth’s climate variability. Thus, an inventory of inland waters is crucially important for hydrologic and ecological studies and management. Therefore, the main aim of this study was to develop a deep learning-based method for inventorying and mapping inland water bodies using the RGB band of high-resolution satellite imagery automatically and accurately. The Sentinel-2 Harmonized dataset, together with ZABAGED-validated ground truth, was used as the main dataset for the model training step. Three different deep learning algorithms based on U-Net architecture were employed to segment inland waters, including a simple U-Net, Residual Attention U-Net, and VGG16-U-Net. All three algorithms were trained using a combination of Sentinel-2 visible bands (Red [B04; 665nm], Green [B03; 560nm], and Blue [B02; 490 nm]) at a 10-meter spatial resolution. The Residual Attention U-Net achieved the highest computational cost due to the increased number of trainable parameters. The VGG16-U-Net had the shortest run time and the lowest number of trainable parameters, attributed to its architecture compared to the simple and Residual Attention U-Net architectures, respectively. As a result, the VGG16-U-Net provided the best segmentation results with a mean-IoU score of 0.9850, a slight improvement compared to other proposed U-Net-based architectures. Although the accuracy of the model based on VGG16-U-Net does not make a difference from Residual Attention U-Net, the computation costs for training VGG16-U-Net were dramatically lower than Residual Attention U-Net.
    Language: English
    Type: info:eu-repo/semantics/article
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