課程資訊
課程名稱
 生物資訊學
BIOINFORMATICS 
開課學期
 98-1 
授課對象
 生物資源暨農學院  動物科學技術學研究所  
授課教師
 林恩仲 
課號
 AniSci7025 
課程識別碼
 626 M1610 
班次
  
學分
 3 
全/半年
 半年 
必/選修
 選修 
上課時間
 星期三2,3,4(9:10~12:10) 
上課地點
  
備註
 上課教室:生物產業自動化教學研究中心與黃乾綱合開
總人數上限：20人 
Ceiba 課程網頁
 http://ceiba.ntu.edu.tw/981_626_M1610 
課程簡介影片
 
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課程概述

This course is designed to guide graduate students applying different bioinformatic tools to launch genomic study. With real-world data and abundant information from public databases, the students will learn how to integrate and interpret information the annotated functions of genes in gene level as well as in genomic level. 

課程目標
 1.how to apply sequence analyses of DNA and protein sequences;
2.how to analyze and utilize bioinformatic databases;
3.how to proceed gene prediction, SNP prediction and protein structure;
4.how to start a phylogenetic analysis; 
課程要求
  
預期每週課後學習時數
  
Office Hours
  
指定閱讀
  
參考書目
 Mount, D. W. 2004. Bioinformatics: Sequence and Genome Analysis. 2nd Ed. Published by: Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, U.S.A.
Baxevanis, A. D. and Francis Ouellette, B. F. (ed.) 2005. Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins. 3rd Ed. Published by: John Wiley & Son, Inc., NY, U.S.A.
Gibson, G and S. V. Muse. 2004. A Primer of Genome Sciences. 2nd Ed. Published by: Sinauer Associates, Sunderland, MA, USA. 
評量方式
(僅供參考)
  
No.
項目
百分比
說明
1. 
 Final exam 
25% 
  
2. 
 Midterm exam 
25% 
  
3. 
 Mini-project 2 
20% 
  
4. 
 Mini-project 1 
10% 
  
5. 
 作業、課堂Q/A 
20% 
  
 
課程進度
週次
日期
單元主題
第1週
 9/16  History and Definition of Bioinformatics 
第2週
 9/23  Sequence Alignment: Pairs of Sequences (Global, Local, BLAST) [Lin] 
第3週
 9/30  Sequence Alignment: Multiple Sequence Alignment (DNA vs. Protein) [Lin] 
第4週
 10/07  Sequence Alignment: Dynamic Programming and Heuristic Algorithms [Huang] 
第5週
 10/14  Bioinformatics Databases: DB establishment and query [Huang](Announce the DB Interpretation project, 10%)(Announce the Final project, 20%) 
第6週
 10/21  Bioinformatics Databases: Genome → Gene → cDNA [Lin]
(Confirm the DB in the project with the URL)
 
第7週
 10/28  Bioinformatics Databases: Protein → Function [Lin] 
第8週
 11/04  Bioinformatics Databases: Interaction → Pathway [Lin]
(Submit the report of this project) 
第9週
 11/11  Midterm Report (15%) 
第10週
 11/18  Gene Prediction [Lin and Huang] 
第11週
 11/25  停課一次 
第12週
 12/02  Protein Structure Prediction [Huang] 
第13週
 12/09  SNP Prediction [Lin] 
第13週
 12/08  Protein Structure Prediction [Huang] 補課 
第14週
 12/16  Phylogenetic Analysis [Lin] 
第15週
 12/23  Phylogenetic Analysis [Lin] 
第16週
 12/30  Final Report I 
第17週
 1/06  Final Report II 
第18週
 1/13  Final Exam (35%) [take-home]