G-蛋白偶合接受體與G-蛋白訊號調控蛋白之整合型資料庫

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姓名

方昱慶(Yu-Ching Fang) 查詢紙本館藏

畢業系所

生命科學系

論文名稱

G-蛋白偶合接受體與G-蛋白訊號調控蛋白之整合型資料庫
(An Integrated Database for G-Protein Coupled Receptors and Regulators of G-Protein Signaling)

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摘要(中)

許多市面上的醫療用藥已經被開發來針對G-蛋白偶合接受體 (GPCRs) 的功能來做調控。為了便利醫學和製藥的研究，我們開發了一個命名為RINGdb的新整合型生物資料庫來提供廣泛和組織過的G-蛋白偶合接受體與G-蛋白訊號調控蛋白 (RGS) 的資訊。在這個資料庫中，特定關於突變 (Mutation) 、組織分佈 (Tissue Distribution) 、蛋白質間的交互作用 (Protein-Protein Interaction) 、疾病/失調 (Diseases/Disorders) 、G-蛋白偶合接受體與G-蛋白訊號調控蛋白之間的關係等等的資訊是從許多文獻收集而來，而這些資訊和其他資料庫相比是獨一無二的。除此之外，RINGdb提供各式各樣對使用者友善的查詢功能來回答許多關於G-蛋白偶合接受體與G-蛋白訊號調控蛋白的問題，例如：他門促成某些疾病發生的可能性、他們在哪些組織共同表現、在G-蛋白訊號調控蛋白上除了最主要的功能區域 (Domain) 外，其他非G-蛋白訊號調控蛋白功能區域的潛在功能、哪些蛋白質可能會和G-蛋白訊號調控蛋白結合等等，並提供相關的統計數值來協助過濾出比較可能的結合蛋白。此資料庫也整合了組織好的資料庫交叉參考(Database Cross-Reference)，讓使用者可以直接獲得細部的資訊。這個知識庫將會有益於醫學研究、藥物開發、G-蛋白訊號調控蛋白和其它蛋白資交互作用的研究以及未來G-蛋白偶合接受體訊號傳遞路徑(GPCR Signaling Pathway)的模擬。

摘要(英)

Many marketed therapeutic agents have been developed to modulate the function of G-protein coupled receptors. To facilitate clinical and pharmacological research, we develop a novel integrated biological database called RINGdb to provide comprehensive and organized RGS/GPCR information. In RINGdb, information with respect to mutation, tissue distribution, protein-protein interaction, diseases/disorders, and the RGS/GPCR relationship are collected from various literature surveys and the result is unique by comparing other databases. In addition, RINGdb offers various user-friendly query functions to answer different questions about RGS/GPCR such as their possible contribution to disease processes, in which tissue they are expressed together, the potential function of the non-RGS domain, putative RGS binding partners and so on and provides statistical values to filter putative RGS binding partners. It also integrates organized database cross-referencing to allow users direct access to detailed information. This knowledge base will be very useful for clinical research, drug discovery, the study of RGS/other binding partner interactions and for future GPCR signaling pathway modeling.

關鍵字(中)

★ G-蛋白訊號調控蛋白
★ G-蛋白偶合接受體

關鍵字(英)

★ Regulators of G-Protein Signaling
★ G-Protein Coupled Receptor
★ RGS
★ GPCR

論文目次

Chapter 1 Introduction 1
1.1 Background 1
1.2 Motivation 3
1.3 Goal 4
Chapter 2 Related Works 5
2.1 GPCRDB 5
2.2 ORDB 5
2.3 gpDB 6
Chapter 3 Materials and Methods 7
3.1 Materials 7
3.1.1 Protein Sequences Database 7
3.1.2 PubMed 7
3.1.3 Gene Expression Database 7
3.1.4 Protein-Protein Interaction Database 9
3.1.5 Protein Domain Database 10
3.1.6 The Pharmacogenetics and Pharmacogenomics Knowledge Base 11
3.1.7 Ligand-Receptor Interaction 12
3.2 Methods 15
3.2.1 System Flow 15
3.2.2 Organization of the Database 16
3.2.3 Data Collection, Preprocessing and Integration 18
3.2.4 Database Cross-Reference 20
3.2.5 Query Design 21
3.2.6 Analysis of Co-expression 21
Chapter 4 Implementation and Results 23
4.1 Data Storage 23
4.2 The Web Interfaces 24
4.2.1 RGS Search Page 25
4.2.2 GPCR Search Page 27
4.2.3 General Information 29
4.2.4 Diseases/Disorders 30
4.2.5 Mutation 31
4.2.6 Tissue specificity/distribution/expression 32
4.2.7 Protein-Protein Interaction 34
4.2.8 Ligand-Receptor and Orphan GPCR Information 38
4.3 RGS, GPCR and Disease Relationship Inference 40
4.4 Disease and Drug Relationship Inferences 42
Chapter 5 Discussion 45
5.1 Comparison 45
5.2 Future Works 46
Chapter 6 Conclusion 48
References 49

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指導教授

洪炯宗、孫維欣
(Jorng-Tzong Horng、Wei-Hsin Sun)

審核日期

2005-6-20

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