CS2220: Introduction to Computational Biology
Instructors: Limsoon Wong / 2011/2012 Semester 1 / IVLE

• Lecture is held every Thursday @ 9am in SR@LT19
• Tutorial is held every Monday @ 1pm in COM1 Room 217
• Main references: The Practical Bioinformatician (by Wong, WSPC) and Algorithms in Bioinformatics: A Practical Introduction (by Sung, CRC).

• The goals of CS2220 (Introduction to Computational Biology) are: (1) development of flexible and logical problem solving skills; (2) understanding of main bioinformatics problems; and (3) appreciation of main techniques and approaches to bioinformatics. To achieve the goals above, we expose the students to a series of case studies spanning gene feature recognition, gene expression and proteomic analysis, gene finding, sequence homology interpretation, phylogeny analysis, physical mapping, and genome sequencing

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Lecture Slides, Assignments, and Notes

• Course Briefing, 11/8/11
  Readings: Chapter 1 of The Practical Bioinformatician and Chapter 1 of Algorithms in Bioinformatics
  

  
  
  
  

• Lecture 1: Essence of Knowledge Discovery, 11/8/11
  Readings: Chapter 3 of The Practical Bioinformatician

  
  
  
  

• Lecture 2: Essence of Knowledge Discovery, 18/8/11
  Readings: Chapter 3 of The Practical Bioinformatician and Li & Wong, PKDD04, tutorial notes

  
  
  
  

• Lecture 3: Gene Feature Recognition, 25/8/11
  Readings: Chapter 4 and chapter 7 of The Practical Bioinformatician, and Koh & Wong, GIW2007, pp 73-82
  Assignment: Assignment #1 (due on 15/9/2011) and translation initiation sites data sets

  
  
  

• Lecture 4: Gene Expression Analysis, 1/9/11
  Readings: Chapter 14 of The Practical Bioinformatician
  Assignment: Assignment #2 (due on 29/9/2011) and gene expression data sets

  
  
  
  

• Lecture 5: Essence of Sequence Comparison, 8/9/11
  Readings: Chapter 10 of The Practical Bioinformatician and Chapters 2 & 5 of Algorithms in Bioinformatics
  Assignment: Assignment #3 (due on 20/10/2011)

  
  
  
  

• Lecture 6: Sequence Homology Interpretation, 15/9/11
  Readings: Chapter 19 of The Practical Bioinformatician

  
  
  
  

• Lecture 7: Gene Finding, 29/9/11

  
  
  
  

• Lecture 8: Phylogenetic Trees, 6/10/11
  Readings: Chapter 19 of The Practical Bioinformatician and Chapters 7 & 8 of Algoritms in Bioinformatics

  
  
  
  

• Student Presentation, 13/10/11
  Target topic: Gene Expression Analysis
  Reading list

  
  

• Student Presentation, 20/10/11
  Target topic: Gene Expression Analysis
  Reading list

  
  

• Student Presentation, 27/10/11
  Target topic: Gene Expression Analysis
  Reading list

  
  
  
  

• Lecture 10: ... I am still thinking about it..., 3/11/11

  
  
  
  

• Lecture 11: Revision, 10/11/11