Engineering and Applied Sciences >> Bioinformatics

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Course Info

  • Course Number / Code:
  • 6.895 (Fall 2005) 
  • Course Title:
  • Computational Biology: Genomes, Networks, Evolution 
  • Course Level:
  • Undergraduate / Graduate 
  • Offered by :
  • Massachusetts Institute of Technology (MIT)
    Massachusetts, United States  
  • Department:
  • Electrical Engineering and Computer Science 
  • Course Instructor(s):
  • Prof. Piotr Indyk
    Prof. Manolis Kellis 
  • Course Introduction:

  • 6.895 / 6.095J Computational Biology: Genomes, Networks, Evolution

    Fall 2005

    Course Highlights

    This course features a complete set of homework and recitation assignments in the assignments and recitations sections. In addition, a partial set of lecture notes is available in the lecture notes section.

    Course Description

    This course focuses on the algorithmic and machine learning foundations of computational biology, combining theory with practice. We study the principles of algorithm design for biological datasets, and analyze influential problems and techniques. We use these to analyze real datasets from large-scale studies in genomics and proteomics. The topics covered include:
    • Genomes: Biological Sequence Analysis, Hidden Markov Models, Gene Finding, RNA Folding, Sequence Alignment, Genome Assembly.
    • Networks: Gene Expression Analysis, Regulatory Motifs, Graph Algorithms, Scale-free Networks, Network Motifs, Network Evolution.
    • Evolution: Comparative Genomics, Phylogenetics, Genome Duplication, Genome Rearrangements, Evolutionary Theory, Rapid Evolution.

    Technical Requirements

    Special software is required to use some of the files in this course: .py.


This course content is a redistribution of MIT Open Courses. Access to the course materials is free to all users.

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