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課程名稱 |
生物系統模擬
Modeling and Simulation in Systems Biology |
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開課學期 |
108-2 |
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授課對象 |
電機資訊學院 電機工程學研究所 |
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授課教師 |
魏安祺 |
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課號 |
BEBI5009 |
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課程識別碼 |
945EU2990 |
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班次 |
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學分 |
3.0 |
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全/半年 |
半年 |
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必/選修 |
選修 |
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上課時間 |
星期五6,7,8(13:20~16:20) |
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上課地點 |
明達225 |
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備註 |
本課程以英語授課。
總人數上限：24人 |
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Ceiba 課程網頁 |
http://ceiba.ntu.edu.tw/1082BEBI5009_ |
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課程簡介影片 |
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核心能力關聯 |
核心能力與課程規劃關聯圖 |
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課程大綱
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課程概述 |
This class discusses current topics in systems biology focused on learning fundamental tools and modeling techniques to develop and apply quantitative models of cellular systems. Essential biological concepts and mathematical fundamentals will be reviewed. |
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課程目標 |
Mathematical modelling is becoming an important tool for molecular and cell biology. This class aims to provide students an introduction to the key concepts that are needed for the construction and investigation of mathematical models in molecular systems biology.
This class will require programming (Matlab or python) for modeling and simulations of some cases introduced in the class. |
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課程要求 |
Prerequisite: Calculus, General biology
Students should be comfortable with basic mathematical concepts of linear algebra, differential equations, probability and basic biology. Prior experience with programming is recommended. |
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預期每週課後學習時數 |
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Office Hours |
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指定閱讀 |
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參考書目 |
An Introduction to Stochastic Processes with Applications to Biology (2011) by Linda Allen |
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評量方式
(僅供參考) |
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No. |
項目 |
百分比 |
說明 |
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1. |
期中考 |
30% |
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2. |
作業 |
40% |
Some homework will require programming. |
3. |
期末報告 |
30% |
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週次 |
日期 |
單元主題 |
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第1週 |
9/11 |
Class overview |
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第2週 |
9/18 |
Introduction to Scientific Programming |
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第3週 |
9/25 |
Ch1. Introduction |
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第4週 |
10/2 |
Ch.2 Chemical reactions |
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第5週 |
10/9 |
Ch.3 Enzyme kinetics |
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第6週 |
10/16 |
Ch. 4 Phase plane analysis
10/19 9am Special talk |
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第7週 |
10/23 |
Sensitivity analysis; Parameter fitting |
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第8週 |
10/30 |
Review |
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第9週 |
11/6 |
Midterm |
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第10週 |
11/13 |
Metabolic network |
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第11週 |
11/20 |
Signal transduction pathways |
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第12週 |
11/27 |
Gene regulatory network |
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第13週 |
12/4 |
Stochastic processes and simulation |
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第14週 |
12/11 |
Special talk by Tzu-Chieh “Zijay” Tang-- Synthetic biology and its application in engineered living materials
Stochastic Modeling |
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第15週 |
12/18 |
Oral presentation |
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第16週 |
12/25 |
Oral presentation |
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第17週 |
1/1 |
New Year Day |