CS2220: Introduction to Computational Biology
Instructors: Limsoon Wong / 2010/2011 Semester 1 / IVLE

• Lecture is held every Thursday @ 12noon in COM1 Room 202
• Tutorial is held every Monday @ 12noon in COM1 Room 241
• 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
Revised 17/9/10. Old version

• Course Briefing, 5/8/10
  Readings: Chapter 1 of The Practical Bioinformatician and Chapter 1 of Algorithms in Bioinformatics
  

  
  
  
  

• Lecture 1: Essence of Knowledge Discovery, 5/8/10
  Readings: Chapter 3 of The Practical Bioinformatician

  
  
  
  

• Lecture 2: Essence of Knowledge Discovery, 17/8/10 (* Lecture given by Wynne Hsu *)
  Readings: Chapter 3 of The Practical Bioinformatician and Li & Wong, PKDD04, tutorial notes

  
  
  
  

• Lecture 3: Gene Feature Recognition, 26/8/10
  Readings: Chapter 4 and chapter 7 of The Practical Bioinformatician, and Koh & Wong, GIW2007, pp 73-82
  Assignment: Assignment #1 and translation initiation sites data sets

  
  
  

• Lecture 4: Gene Expression Analysis, 2/9/10
  Readings: Chapter 14 of The Practical Bioinformatician
  Assignment: Assignment #2 and gene expression data sets

  
  
  
  

• Lecture 5: Essence of Sequence Comparison, 9/9/10 and 16/9/10.
  Readings: Chapter 10 of The Practical Bioinformatician and Chapters 2 & 5 of Algorithms in Bioinformatics
  Assignment: Assignment #3

  
  
  
  

• Lecture 8: Phylogenetic Trees, 30/09/10 (* Lecture moved forward from 7/10/10. Lecture given by Ken Sung. *)
  Readings: Chapter 19 of The Practical Bioinformatician and Chapters 7 & 8 of Algoritms in Bioinformatics

  
  
  
  

• Next Generation DNA Sequencing and Bioinformatics: Bottlenecks and Opportunities, 7/10/10
  This is a special seminar by Professor Stephen Tsui, Chinese University of Hong Kong

  
  
  
  
  
  
  
  
  
  

• Lecture 6: Sequence Homology Interpretation, 14/10/10 (* Postponed from 16/9/10 *)
  Readings: Chapter 19 of The Practical Bioinformatician

  
  
  
  

• Lecture 7: Gene Finding, 21/10/10 (* Postponed from 30/9/10 *)

  
  
  
  

• Student Presentation, 28/10/10
  Target topic: MicroRNA Target Prediction
  Reading list

  
  

• Student Presentation, 4/11/10
  Target topic: MicroRNA Target Prediction
  Reading list

  
  
  

• Lecture 11: Revision, 11/11/10