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蛋白質三級結構預測之準確度極限探討

為了解決lysozyme中文的問題，作者黃昱瑋 這樣論述：

致謝 i中文摘要 iiAbstract iiiContents ivFigures viiTables viiiChapter 1. Introduction 11.1 Tertiary protein structure prediction 11.2 Difficulties in determining the limit of tertiary protein structure prediction 21.3 Naturally occurring limi

tation of tertiary protein structure prediction 41.4 Summary of our results 5Chapter 2. Materials and methods 72.1 Experimental datasets 72.2 Organization of SCOP homologs 82.2.1 Grouping family-level homologs by random sampling 82.2.2 Sorting homolog pairs

into decreasing sequence identity levels 102.3 Sequence alignment methods 102.4 Structure alignment methods 112.5 Protein structure prediction 122.5.1 Template-free prediction 122.5.2 Templated-based prediction (modeling) 122.6 Structural similarity scor

es 132.6.1 QCS 132.6.2 CAD-Score 142.6.3 GDT_TS and GDT-HA 152.6.4 TM-score 172.7 Computation of the structural similarity scores 182.8 Statistical analyses 18Chapter 3. Results 203.1 The upper limit of templ

ate-free tertiary structure prediction estimated by homologs with identical sequences 203.2 The accuracy of modern template-free structure prediction methods 233.3 The limit of template-based prediction accuracy estimated using SCOP family-level structural homologs

263.4 The accuracy of modern template-based structure prediction methods 303.5 The accuracy of modern tertiary structure prediction methods for various protein structure classes and sizes 313.6 Integration of protein structural similarity scores for TSP assessment

37Chapter 4. Discussion 414.1 On the estimated limits of TSP accuracy 414.2 On the TSP accuracy for proteins of different structural classes or sizes 444.3 On the observed properties of applied TSP accuracy measures 45Reference 49Supple

mentary materials 53

利用螢光奈米碳點搭配適體偵測器檢測血漿中之血管內皮生長因子

為了解決lysozyme中文的問題，作者伍家萱 這樣論述：

血管內皮生長因子（Vascular endothelial growth factor, VEGF）是血管生成的關鍵影響因子，在癌症初期腫瘤生長時需要新生大量的血管用以輸送養分與氧氣，此時VEGF濃度就會異常增高，因此被視為癌症重要生物標的物 ( bio-marker ) 。目前檢測VEGF的技術開發也日漸成熟，並作為是否罹患癌症的重要輔助判斷，但檢測方法常需要昂貴儀器或耗材，因此本篇研究開發以螢光奈米碳點（carbon dots, CDs）搭配適體 ( aptamer, APT )組成之適體偵測器，用以針對血管內皮生長因子進行檢測。 本研究以螢光奈米碳點作為螢光探針並在aptamer

上設計一個官能基--dabcyl做為螢光能量轉移淬滅物質。利用螢光共振能量轉移( Fluorescence resonance energy transfer, FRET)的方式在aptamer與CDs靜電相吸後造成螢光淬滅，而有偵測到VEGF樣品則會的透過aptamer與VEGF的特異性結合從而形成立體空間障礙使CDs無法與dabcyl結合使螢光不會下降，透過這樣的反應機制與螢光強度的高低來檢測VEGF與其對應的濃度。結果證實螢光訊號隨著VEGF的濃度的增加而上升。本研究方法的有良好的減量線線性(y = 2349.7x - 109.84，r = 0.9963) 和檢測極限低至0.08 ng/

mL，且具有良好的精密度和選擇性。此外，所提出的方法已成功應用於檢測在人造血清中的樣品，人造血清樣本的檢測結果表明，回收率範圍為 85.7% 至 104.2%而相對標準偏差則落在0.9% 至2.6% 之間，具有在臨床研究和診斷中的應用潛力。