Deep learning-based histopathological segmentation for whole slide images of colorectal cancer in a compressed domain

Automatic pattern recognition using deep learning techniques has become increasingly important. Unfortunately, due to limited system memory, general preprocessing methods for high-resolution images in the spatial domain can lose important data information such as high-frequency information and the r...

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Bibliographic Details
Published in:	Scientific reports Vol. 11; no. 1; p. 22520
Main Authors:	Kim, Hyeongsub, Yoon, Hongjoon, Thakur, Nishant, Hwang, Gyoyeon, Lee, Eun Jung, Kim, Chulhong, Chong, Yosep
Format:	Journal Article
Language:	English
Published:	London Nature Publishing Group UK 18-11-2021 Nature Publishing Group Nature Portfolio
Subjects:	631/114/1305 631/114/1564 639/705/117 Algorithms Biopsy Colorectal cancer Colorectal carcinoma Colorectal Neoplasms - diagnostic imaging Computer Graphics Computers Deep Learning Humanities and Social Sciences Humans Image processing Image Processing, Computer-Assisted - methods Machine Learning multidisciplinary Neural networks Neural Networks, Computer Pattern recognition Predictive Value of Tests Principal Component Analysis Principal components analysis Probability Reproducibility of Results Science Science (multidisciplinary) Segmentation Software User-Computer Interface Wavelet Analysis Wavelet transforms
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Summary:	Automatic pattern recognition using deep learning techniques has become increasingly important. Unfortunately, due to limited system memory, general preprocessing methods for high-resolution images in the spatial domain can lose important data information such as high-frequency information and the region of interest. To overcome these limitations, we propose an image segmentation approach in the compressed domain based on principal component analysis (PCA) and discrete wavelet transform (DWT). After inference for each tile using neural networks, a whole prediction image was reconstructed by wavelet weighted ensemble (WWE) based on inverse discrete wavelet transform (IDWT). The training and validation were performed using 351 colorectal biopsy specimens, which were pathologically confirmed by two pathologists. For 39 test datasets, the average Dice score, the pixel accuracy, and the Jaccard score were 0.804 ± 0.125, 0.957 ± 0.025, and 0.690 ± 0.174, respectively. We can train the networks for the high-resolution image with the large region of interest compared to the result in the low-resolution and the small region of interest in the spatial domain. The average Dice score, pixel accuracy, and Jaccard score are significantly increased by 2.7%, 0.9%, and 2.7%, respectively. We believe that our approach has great potential for accurate diagnosis.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23
ISSN:	2045-2322 2045-2322
DOI:	10.1038/s41598-021-01905-z