Topics in Computational Biology: Genomes, Networks, and Cancer (CSCI2950-C)

Fall 2010

Tuesday/Thursday 10:30-11:50am [CIT 241]

Professor: Ben Raphael

The Cancer Genome Atlas, a new genome project for cancer, presents numerous algorithmic, machine learning, and modeling challenges. We will examine in this context new and classic problems in computational biology including: genome assembly, genome rearrangements, phylogeny, and cellular interaction networks.


Course Organization

The course will be organized in seminar style where students will present recent papers on the topics listed below. Each topic will be introduced with background lectures. Students will undertake either two half-semester or one full semester (with a midterm report) project(s) to further study one of the class topics. The project could range from theoretical (e.g. designing a new algorithm and proving its correctness), to the practical (a software implementation) depending on the interest of the student.



Paper Reviews

Paper reviews are due BEFORE the class when the paper is presented. Email your review to me using this review form.

Course Credits (tentative)


Previous offerings of this course are available here:

  • Fall 2009
  • Fall 2008.
  • Fall 2007.
  • Spring 2007.