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研究生: 郭奕禎
Kuo, Yi-Zhen
論文名稱: 在非酒精性脂肪肝病中檢測氣球狀變性肝細胞使用主動學習最小化標註成本
Use of active learning to minimize labeling cost in detection of ballooning degeneration liver cells in NAFLD
指導教授: 詹寶珠
Chung, Pau-Choo
學位類別: 碩士
Master
系所名稱: 電機資訊學院 - 電腦與通信工程研究所
Institute of Computer & Communication Engineering
論文出版年: 2021
畢業學年度: 109
語文別: 英文
論文頁數: 51
中文關鍵詞: 電腦輔助偵測及診斷數位組織切片影像非酒精性脂肪肝炎氣球樣變性肝細胞偵測卷積神經網路主動學習類別不平衡
外文關鍵詞: computer-aided detection and diagnosis, digital histopathological image, nonalcoholic fatty liver disease (NAFLD), ballooning degeneration liver cells detection, convolutional neural networks, active learning, class imbalance
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  • 非酒精性脂肪肝病(NAFLD)大致可分為兩種類型,非酒精性脂肪肝(NAFL)和非酒精性脂肪性肝炎(NASH)。在這兩種類型中,非酒精性脂肪肝炎更危險,其特徵是肝細胞膨脹。傳統上,NASH是由專業的病理學家在全景玻片影像(WSI)中手動檢測。然而,這個過程相當耗時且主觀容易出錯。因此,迫切需要電腦輔助診斷方法。因此,本文提出了一種模型自動檢測肝臟病理中氣球樣變性肝細胞,該模型基於U-net,添加了。(1) attention gates: 用以抑制模型學習不相關區域,並在訓練過程中同時加強相關特徵的學習;(2)recurrent units用以加深網絡結構,從而能夠在相同數量的模型參數下提取更好的特徵;(3) residual block用以加速訓練過程收斂。此外,本研究還提出了一種優化的主動學習算法,以解決訓練過程中數據不均衡的問題,並相應提高檢測性能。以台灣某一公立醫院62例NASH患者的註釋WSI為研究對象,研究了所提出模型和學習算法的可行性。結果表明,該方法可以檢測到氣球化變性肝細胞,F1-score為70.81%。此外,該方法還降低了約43%的標記成本。因此,該方法為醫生進行NASH病理檢查提供了一個有價值的輔助工具。

    Non-alcoholic fatty liver disease (NAFLD) can be broadly classified into two types, namely non-alcoholic fatty liver (NAFL) and non-alcoholic steatohepatitis (NASH). Of the two types, NASH is more dangerous, and is characterised by hepatocellular ballooning. Traditionally, NASH is detected manually in whole slide images (WSIs) by a professional pathologist. However, the process is time-consuming, subjective, and prone to errors. Therefore, there is an urgent need for computer-aided diagnostic methods. Accordingly, this paper proposes a novel method for the automatic detection of ballooning cells in liver pathology based on a U-net model extended to include: (1) attention gates to suppress irrelevant areas of model learning and aggregate the learning of relevant features simultaneously during the training process; (2) recurrent units to deepen the network structure and therefore enable the extraction of better features with the same number of model parameters. and (3) residual units to accelerate the training process. The study additionally proposes an optimized active learning algorithm to solve the problem of data imbalance in the training process and improve the detection performance accordingly. The feasibility of the proposed model and learning algorithm is investigated using annotated WSIs obtained from 62 NASH patients at a public hospital in Taiwan. The results show that the method can detect ballooning cells with a F1-score of 70.81%. In addition, the method reduces the labeling cost by around 43%. The method thus provides a valuable assistive tool to doctors in performing NASH pathology.

    摘要 I Abstract III Table of Content VI List of Tables VIII List of Figures IX Chapter 1 Introduction 1 Chapter 2 Related Works 6 2.1 Semantic Segmentation 6 2.1.1 Convolutional Neural Networks 6 2.1.2 Fully Convolutional Networks 7 2.2 Imbalance Data Problem 7 2.3 Active Learning 8 Chapter 3 Method 10 3.1 Patch Acquisition 10 3.1.1 Patch Annotation 10 3.2 Network Architecture 11 3.2.1 Attention Gate 13 3.2.2 Recurrent Unit 14 3.2.3 Residual Block 15 3.2.4 Network Configuration and Implementation Details 16 3.3 Application of Active Learning 20 3.3.1 Information Quantity Estimation 21 3.3.2 Uncertainty Estimation 22 3.3.3 Pseudo-Labelling 23 3.3.4 Selection Strategy 24 Chapter 4 Experiments and Results 26 4.1 NCKU NASH WSI Dataset 26 4.2 Evaluation Criterion 26 4.3 Experiment 27 4.3.1 Segmentation Results 28 4.3.2 Performance of Active Learning 39 4.4 Execute Time 42 Chapter 5 Conclusion 46 References 47

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