BME 483/543: Quantitative Systems Biology

Course Information

  • Syllabus: syllabus
  • Recommended reources:
  • NCBI Pubmed Research Articles.
  • [ZB] M. Zvelebil, J.O. Baum. Understanding Bioinformatics. Garland Science. (ebook)
  • Pevzner, Computational Molecular Biology: An Algorithmic Approach. MIT press.
  • A Practical Approach to Microarray Data Analysis, D.P. Berrar, W. Dubitzky, and M. Granzow, Springer Science & Business Media.

Course Material


  • Dropbox setup
  • Using file sharing and versioning systems: Github, SVN
  • Working with webpages in Matlab
  • File parsing strategies in Matlab. regular expression.

Micro-RNA Analysis

  • Reading: See paper signup.

Paper Signup

2019/04/03 14:19

  • Reminder to self: Discuss vectorized code: e.g., remove all rows with less than 3 non-nan samples.

Paper Signup


  • Assignments: 70%:
    • Weekly programming and analysis assignments.
    • Research article review and presentation.
      • Find and discuss papers related to the topics we cover in the course. You need to contribute 5 papers (each from a different topic) (Bmes483 students: 3 papers). At least one of your papers must be found by you. You can find the others yourself or sign up for the existing papers. Prepare a power point presentation to facilitate discussion.
    • Active Participation.
  • Final Projects: 30%

webdata/index.txt · Last modified: 2019/04/30 08:17 by Ahmet Sacan