This course is offered in English.

Parts of the contents require basic knowledge in Molecular and cellular

一、課程說明(Course Description)

In this course, we will introduce essential servers, databases and online
tools in Bioinformatics. We will also conduct hand-on exercises in
functional genomics and protein analyses.

用,並針對各種常用生物資料庫作概略性的介紹,包括 NCBI, Protein Data Bank (PDB)、
KEGG、ExPasy 等生物資料庫。 課程中將連線上網,實際操作、演練各種輔助軟體
(Browser, viewer, molecular displayer...)。

二、指定用書(Text Books)



1. Bioinformatics: a practical guide to the analysis of genes and proteins
Third Edition -- Gene Module

四、教學方式(Teaching Method)

Lectures and hand-on training will be offered in Life Science computer room.


五、暫定教學進度(Tentative Syllabus)

Protein Module –
(Text and tools to be found in NTHU-Life Alpha Server)

1. Protein function prediction by similarity (homology) to
characterized proteins
2. Identifying related protein family members
3. Multiple sequence alignment: methods and interpretation
4. Hidden Markov models: use in homolog identification, structure
prediction, and multiple sequence alignment
5. Protein structure prediction methods
6. Motif detection
7. Predicting binding pocket and other critical functional positions in
8. Subfamily classification
9. Experimental methods for determining protein structure & function
10. Public databases of protein structure and function


Gene Module-

1. Introduction to Bioinformatics: history and usage in industry -
2. Information retrieval from biological database -
3. Sequence alignment and database searching -
4. Genomic mapping and mapping databases -
5. Predictive methods using DNA sequences –
6. Expressed sequence tags (ESTs) –
7. Sequence assembly and finishing methods –
8. Phylogenetic analysis –
9. Comparative genome analysis –
10. Large-scale genome analysis –
Special Topic: Using PERL to facilitate biological analysis -



Grading policy - Homework 50% / Midterm and final Exam. 30% / Projects 20%

10% credit will be deducted for late homework. Homework submission shall be
be delayed for more than 3 days.

總成績 算法 — Homework 50% / Midterm and final Exam. 30% / Projects 20%
Homework 遲交一天扣該次 homework 成績10%,遲交三天視同未交。

Do not be late for the class. Two counts of late arrival will be marked as 1
x absence (10% credit deduction for the final score.) Three absences will
result in a "F" of the final grade.

上課時間 — 請勿遲到

七、可連結之網頁位址 (Links)

NTHU E-Learning System:

NTHU LS Alpha server: