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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 |
106-2 |
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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 |
945 U2990 |
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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 |
星期四2,3,4(9:10~12:10) |
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上課地點 |
明達203 |
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備註 |
總人數上限：24人 |
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Ceiba 課程網頁 |
http://ceiba.ntu.edu.tw/1062BEBI5009 |
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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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為確保您我的權利,請尊重智慧財產權及不得非法影印
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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 biochemistry & molecular 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 |
Mathematical Modeling in Systems Biology(2013) by Brian P. Ingalls |
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參考書目 |
Stochastic Modelling for Systems Biology(2011) by Darren J. Wilkinson |
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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. |
期末報告 |
30% |
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3. |
作業 |
40% |
Some homework will require programming. |
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週次 |
日期 |
單元主題 |
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第1週 |
3/01 |
Class overview
Introduction to Python |
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第2週 |
3/08 |
Introduction to Python
Ch1. Introduction |
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第3週 |
3/15 |
Ch.2 Chemical reactions
Systems of differential equations
Separation of Timescales
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第4週 |
3/22 |
Ch. 3 Enzyme kinetics
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第5週 |
3/29 |
Cooperativity
Ch. 4 Phase plane analysis
Stability |
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第6週 |
4/05 |
放假日 |
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第7週 |
4/12 |
Stability
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第8週 |
4/19 |
Sensitivity analysis; Parameter fitting
Review |
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第9週 |
4/26 |
期中考 |
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第10週 |
5/03 |
Stochastic processes and simulation |
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第11週 |
5/10 |
Stochastic Modeling |
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第12週 |
5/17 |
Special talk: Dr. Weng, "Skin, nerve, itch and pain" 9:10am (must attend)
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第13週 |
5/24 |
Gene regulatory networks
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第14週 |
5/31 |
Metabolic network
Signal transduction pathways |
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第15週 |
6/07 |
Oral presentation |
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第16週 |
6/14 |
Oral presentation |
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第17週 |
6/21 |
Term project due |