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研究生: 謝逸儒
Xie, Yi-Ru
論文名稱: 基於機器學習於腦神經醫學影像與神經心理資料生物特徵鑑定於阿茲海默症之辨識
Neuroimaging and Neuropsychological Data Biomarker Identification for Alzheimer's Disease via Machine Learning
指導教授: 李國君
Lee, Gwo-Giun (Chris)
共同指導教授: 白明奇
Pai, Ming-Chyi
學位類別: 碩士
Master
系所名稱: 電機資訊學院 - 電機工程學系
Department of Electrical Engineering
論文出版年: 2020
畢業學年度: 108
語文別: 英文
論文頁數: 128
中文關鍵詞: 阿茲海默症磁振造影海馬迴子區簡短智能測驗細項分數臨床失智評估量表細項分數特徵選擇多層感知器
外文關鍵詞: Alzheimer’s disease, Magnetic Resonance Imaging, Hippocampal Subfields, Mini-Mental State Examination sub-item scores, Clinical Dementia Rating Sum of boxes sub-item scores, Feature Selection, Multilayer Perceptron
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  • 失智症是一種神經退化性疾病或血管疾病,其特徵在於精神功能下降,包括異常活動,行為和認知的症狀表現組合。阿茲海默症是最常見的失智症類型,約有60%至70%的失智症病例是阿茲海默症。此論文提出在磁核照影像資料中提取以數學模型量化的生物特徵來辨識,且更進一步地結合神經心理資料,從不同的角度來辨識阿茲海默症。所提出的演算法將具有海馬迴子區標示的磁核照影像,建模成表面模型後以萃取體積、表面積和曲率之重要的特徵,並透過兩種不同的特徵選取方式,將所萃取的特徵對其中具有統計上的顯著差異或是經由隨機森林的特徵選取來篩選。這些磁核照影像特徵將與神經心理資料串聯輸入於多層神經感測器來分類。分類器被設計於執行分類任務,分類任務為辨識輕度知能障礙是否轉變為阿茲海默症。本論文的主要貢獻為1.以更大的資料庫驗證前人實驗的正確性。論文額外從阿茲海默症腦神經影像計畫(ADNI)的數據庫中擷取178位受試者,相較於先前研究的62位受試者,共240位,以更大受試者的資料庫來驗證實驗的正確性。2.以具邏輯地特徵選取方式篩選特徵,並將其導入神經網路模型架構中,得到79.95%分類準確度。3.結合腦神經醫學影像特徵及神經心理資料,得到86.94%分類準確度,驗證兩種腦神經資料一起使用的分類器強度大於個別使用。我們期望將以機器學習方法所萃取到的特徵與醫生分享,並更進一步設計實驗驗證所萃取之生物特徵的正確性。

    Dementia is neurodegenerative or vascular disorder which is characterized by declining mental function including a combination of symptoms for abnormal activity, behavior and cognitive. Alzheimer’s disease (AD) is the most common type of dementia and there are around 60 to 70 percent of dementia cases which is caused by AD. This thesis is dedicated to extract biomarkers quantified by mathematical model from structural Magnetic Resonance Imaging (MRI), and further combines neuropsychological data to identify AD from different aspects. The proposed algorithm will build the surface model from labeled structural MRI, and extract volume, surface area and curvature from different hippocampus sub-regions. And through two different feature selection methods, the extracted features are statistically significantly different or features are selected through random forest. These neuroimaging features will be cascaded with neuropsychological data, and be fed into multi-layer perceptron (MLP) to classify. The classifier is designed to execute classification task. The classification task is to identify whether Mild Cognitive Impairment (MCI) is converted to AD. The main contribution of this paper: 1. We test the model with enlargement dataset to know the impact with different sizes of dataset. We collect 178 subjects from the Alzheimer's Disease Neuroimaging Initiative (ADNI) database, compared to the 62 subjects in previous study, total 240 subjects with a larger database to verify the experiment. 2. The features were selected by logical feature selection method which imported into neural network architecture, and we achieved 79.95% classification accuracy. 3. Combining neuroimaging feature and neuropsychological data, we achieved 86.94% classification accuracy. We also verified that the model used two neurological data is stronger than the models with either neuroimaging or neuropsychological data. We expect to share the observation presented by the machine learning method with the doctor and further design the experiment to verify the correctness of the extracted biomarkers.

    摘 要 i Abstract iii 誌 謝 v Table of Contents vii List of Tables xii List of Figures xvi Chapter 1 Introduction 1 1.1 Objective 1 1.2 Motivation 2 1.3 Background Information 3 1.3.1 Dementia and Alzheimer’s Disease 3 1.3.2 Stage of Alzheimer’s Disease 4 1.3.3 Regions of Brain Related to Alzheimer’s Disease 5 1.3.4 Biomarkers of Alzheimer’s Disease 9 1.3.5 Alzheimer's Disease Neuroimaging Initiative (ADNI) Database 12 1.3.6 Magnetic Resonance Imaging (MRI) 13 1.3.7 Neuropsychological Assessment 14 1.3.8 Demographic Data 17 1.4 Problems identification and hypothesis formulation 18 1.5 Organization of This Thesis 19 Chapter 2 Surveys of Related Works in the Literatures 20 2.1 Machine Learning Research in Alzheimer’s Disease 20 2.1.1 Neuroimaging - Based Classification Studies 20 2.1.2 Multimodality Neuroimaging Based Analysis 22 2.1.3 Deep Learning Based Analysis 23 2.2 Neuroimaging Preprocessing Tools 25 2.2.1 FreeSurfer 26 2.2.2 The Surface - Based Stream 26 2.2.3 The Volume - Based Stream 28 2.3 Classification 29 2.3.1 K-Means Clustering 30 2.3.2 Support Vector Machine 32 2.3.3 Multi-Layers Perceptron (MLP) 33 2.3.4 Convolutional Neural Network (CNN) 38 2.4 Learning Technique 40 2.4.1 K-Fold Cross Validation 40 2.4.2 Early stop 41 2.4.3 Dropout 42 2.4.4 Transfer Learning 43 2.5 Optimizers 44 2.5.1 Gradient Descent 44 2.5.2 Momentum 46 2.5.3 Adagrad 46 2.5.4 Adam 47 Chapter 3 Proposed Algorithms 48 3.1 Overview of Proposed Algorithm 48 3.2 Experiment Data 50 3.2.1 Participants 50 3.2.2 Data Selection 51 3.2.3 MRI Preprocessing 53 3.3 Curvature Analysis of Hippocampal Surface 60 3.3.1 3D Surface Reconstruction 60 3.3.2 Surface Smoothing 62 3.3.3 Curvature Calculation 64 3.4 Feature Extraction from Structural MRI 68 3.5 Feature Selection Method 70 3.5.1 Univariate Selection 70 3.5.2 Feature Importance Property in Random Forest 72 Chapter 4 Experimental Results and Discussion 75 4.1 Experimental Environment 75 4.2 Feature Extraction from neurological data 77 4.2.1 Statistic on Neuroimaging Features 77 4.3 The impact of increased dataset 87 4.3.1 The Experiment Results for Different Dataset Size 88 4.3.2 Analysis of Experimental Results 90 4.3.3 The experiment for verifying descending accuracy 90 4.3.4 Discussion 95 4.4 Improvement Based on Feature Selection 96 4.4.1 Univariate selection method 96 4.4.2 Feature importance selection 102 4.4.3 Identification of MCI Conversion Based on MLP 104 4.4.4 Discussion 106 4.5 Adding Neuropsychological Data as Biomarker 108 4.5.1 Statistic on Neuropsychological Data 108 4.5.2 The feature selection result 110 4.5.3 Identification of MCI Conversion Based on MLP 112 4.5.4 Discussion 114 4.6 Classification Comparison of Different Approaches 115 Chapter 5 Conclusions and Future Works 117 5.1 Conclusions 117 5.2 Future Works 118 Acknowledgments 119 References 120

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