Bioinformatics
Course Introduction
About Bioinformatics Bioinformatics (
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How to learn? Three major parts you should know about bioinformatics:
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General theories and applications.
How to use online tools and free-ware software to analyze data? What are theories behind these tools?
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Developmental tools.
To develop algorithms and software for data mining. To establish databases.
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Genomics, Proteomics and Systems Biology.
What are critical questions? What is the knowledge derived from bioinformatics? What are future directions?
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About this course
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The name
Bioinformatics ( LS 114 (Theory) ST021(Practice) )
The place
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About this course
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Two parts in this course:
The theoretical part, and The practical part. To understand what bioinformatics is. To go through major topics of bioinformatics. To learn basic skills of bioinformatics.
The aims of this course
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The requirements of this course You should have basic knowledge and understanding of general biology. You should have basic knowledge and understanding of molecular biology. You should have basic knowledge of computer and internet surfing.
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The materials of this course The textbooks.
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Bioinformatics:A Practical Guide to the Analysis of Genes and Proteins 3/e 2005 Understanding Bioinformatics 2008 (Recommended)
The home page of this course.
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http://140.128.117.125
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What topics we will go through? There are four major topics we will go through:
(1) Introduction to bioinformatics and computer skills you have to know. (2) Understanding and usage of biological databases. (3) Sequence analysis of DNA and protein. (4) Comparative genomics.
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Topic 1. Introduction to bioinformatics and computer skills you have to know:
A general introduction to bioinformatics.
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Basic computer skills.
The big picture of bioinformatics. What is in bioinformatics? What are they doing in bioinformatics? The applications of bioinformatics.
Properties of different OS: windows and unix-like systems. ๏ The internet.
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Topic 2
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Biological databases.
How to deal with databases? Information retrieval from biological databases. Sequence databases.
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Genomic databases.
DNA Protein
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Topic 3
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Sequence analysis
Gene detection and genome annotation.
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Secondary structure prediction and analysis of protein sequences.
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Predictive methods using DNA sequences.
Producing and analyzing sequence alignments.
Pairwise sequence alignment and database searching. Multiple sequence alignments, patterns and profiles. Creation and analysis of protein multiple sequence alignments.
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Obtaining secondary structure from sequence. Predictive methods using protein sequences.
Topic 4
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Comparative genomics.
What is genomics? What do we learn from different genomes? Computational approaches in comparative genomics.
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Bonus topics DNA microarray and its analysis. Developmental tools: Perl. Systems biology.
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Qualification
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Mid-exam
Open book 30% Open book 30% Send to me: chiu.weihsin@thu.edu.tw 40%
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Final-exam
Home work
Contact me
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Office hour
Every monday, 10:00~12:00 am LS133 32436 chiu.weihsin@thu.edu.tw
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Place Phone E-Mail