視覺化基因分子調控路徑及基因附加資訊整合平台之建構

Integrated Platform Construction of Gene Pathways Visualization and Gene Annotations

周畹萍(Wan-Ping Jou)

指導教授 ： 李元綺

共同指導教授 ： 蔣以仁

臺北醫學大學/醫學院/醫學資訊研究所/碩士(2010年)

https://doi.org/10.6831/TMU.2010.00141

摘要

隨著基因調控研究的開展，基因調控網絡視覺化的重要性越來越受到重視，基因存在著彼此調控的機制，透過其所製造出來具有功能性的蛋白質，作為轉錄因子黏附到其目標基因，目標基因便會接收轉錄因子所帶來的訊號，進行基因的活化或抑制，並進而產生功能性蛋白質，供給生物體內的運作的需求，亦或是再成為轉錄因子，調控位於更下游的基因。而這一連串的過程，我們即可繪製出基因調控的路徑，透過視覺化工具的繪製，便能將抽象的基因調控網路具體化，透過直覺式的圖形化呈現，便能更快速掌握基因調控的相關情形。

本研究本著協助使用者提升使用效率的想法概念，以基因調控路徑視覺化為目標，結合近年來的Flex新技術，利用其開發友善的使用者圖形化介面之強項，規劃建構出一套整合性平台，以開發路徑視覺化工具為主，透過快速的視覺化呈現，再加上介面更加友善且易使用，改善傳統視覺化系統工具於網絡視覺化呈現上的不足。另一方面，以基因為主體，結合公開資料庫相關的基因本體論資訊、相關疾病分類等實用資訊，輔助使用者獲得更完整的訊息，以促使其研究工作得以更加順利的展開，以提升其研究使用上的效能及效率。

關鍵字

基因調控路徑 ； 視覺化 ； 基因注釋 ； 基因整合資訊

並列摘要

With the development of gene regulation research, gene regulatory network visualization is getting more and more attention. We all know that there is a regulatory mechanism between genes. The functional proteins play roles as “Transcriptional Factor” and bind to the promoter region of a particular target gene. After receiving signals, the activity of the target gene will be activated or be inhibited, and thereafter produce more functional proteins to pass on some message or operation in organism. This series of gene regulatory pathway is able to be recorded through the whole regulation progress by using visualization tool. With the direct display of the regulatory networks, we can discover the relation between genes much more quickly.

To assist the researcher to conduct such research and to improve their efficiency, this study tries to make the gene regulatory pathway well-visualized. New technique such as Flex is applied to reinforce the visualization effect. We construct an integrated platform and provide pathway visualization tool as one main purpose. Through clear visualization, we can improve the lack of visual presentation of traditional visual system tools. On the other hand, we combine the useful information such as GO terminology and related disease of specific gene on public database to support users to get comprehensive knowledge. We hope our development can provide a comprehensive and user-friendly service which makes the research work more smoothly and efficiently.

並列關鍵字

Gene regulatory pathway ； Visualization ； Gene annotation

參考文獻

Ingenuity Pathway Analysis (IPA) tool.

Gene Regulatory Networks.

Kyoto Encyclopedia of Genes and Genomes (KEGG).

NCBI Entrez protocal.

The Comparative Toxicogenomics Database (CTD).