2008-04-012024-05-17https://scholars.lib.ntu.edu.tw/handle/123456789/676241摘要：「系統生物學」研究的主要目標是為生物系統建立實用的定量描述模型。常見的生物系統範例包括代謝路徑以及基因調控網路。此外，系統生物學研究亦是研發許多創新性生物科技，如生質能源的關鍵工作。一個定量的模型是描述生物系統動態表現的基礎。這裡所謂的動態表現包括系統的輸入/輸出反應、系統的可靠性與穩定性、以及調控機制等。由於生物系統的複雜度遠高於現今系統科學理論所能有效處理的限度，因此發展更先進的系統科學理論是一項極為迫切的工作。針對本子計畫的主題，我們組織了一個包括計算生物學家、系統科學家、資訊科學家、以及生物學家的團隊，其中並包括一位研究乳癌與白血病的專家。在本子計畫之第二年中，我們將以酵母菌與癌細胞的基因調控網路作為研究重點，預期更進一步提升預測酵母菌中所有轉錄因子的結合位置方法之準確性，同時，第二年的重點將更著重於辨識轉錄因子之間的交互作用組合、及其結合位置的作用強度與相互之間的規則。我們選擇酵母菌作為原理探討與應用研究的模式生物乃是基於酵母菌是最簡單的真核生物而且有關其分子、基因、以及基因體的現有資料量也是最龐大的。本團隊中有多位成員已針對酵母菌的研究累積相當可觀的經驗。此外，我們亦規劃將系統生物學的方法論導入癌症基因調控網路的研究上，尤以乳癌為主要標的。由於本團隊中有癌症生物學的專家可提供相關的背景知識以及進行相關的實驗以驗證定量系統模型的預測，我們預期這樣的研究方法將使得我們對癌症有更深入與更廣氾的了解。<br> Abstract: The main objective of systems biology research is to create realistic quantitative models for biological systems such as gene regulatory networks. A quantitative model is required to describe the dynamics behavior of a biological system, including input/output responses, system reliability and stability, and the control mechanism. Because biological systems are far more complex than what existing theories in system sciences can effectively handle, new and more sophisticated theories must be developed to expedite current biomedical research. To pursue this subject, last year we organized a team that consists of computational biologists, systems engineers, computer scientists, and biomedical scientists including a cancer expert. And the second year, we aim at further improving the prediction accuracy of discovering transcription factor binding sites. Meanwhile, the main focus of the second year will be studying the relationships between a set of transcription factors of interest and deriving the cis-rules that control the expression of potential target genes in different conditions. We shall focus on development of models and methods and on gene regulatory networks in yeast and in breast cancer. We choose yeast as a model organism for theory development and applications because it is the simplest eukaryote and has the most abundant molecular, genetic and genomic data. Many of our members have already had considerable experience with yeast. Further, we take a systems biology approach to cancer because cancer is a systems biology disease. We shall focus on regulatory networks in breast cancer, for which we have expertise to provide background knowledge and experimental validation of our key predictions.系統生物學基因調控網路生物網路systems biologygene regulatory networksbiological network