CSE 549 - Introduction to Computational Biology

Fall 2012
Course Time: 4-5:20PM Tuesday-Thursday
Place: W4535 Melville Library
Instructor: Steven Skiena

This is a course in algorithmic issues in biology, focusing current problems in genomics. Our emphasis will be algorithmic, on discovering appropriate combinatorial algorithm problems and the techniques to solve these problems. Primary topics will include DNA sequence assembly, DNA/protein sequence comparison, hybridization array analysis, RNA and protein folding, and phylogenic trees.

The prerequisites for this course will be a course in combinatorial algorithms (CSE 373/548 or equivalent) or a strong background in biology. I hope to get a mix of students from the computational and life sciences.

The course TA may be Rukhsana Yeasmin. His office hours are Tuesday and Thursday: 2-3.30PM in room 350 Life Sciences. Contact her by email at ryeasmin@cs.stonybrook.edu.

  • Guest lecture by David Green on computational protein design (9/5/12).
  • There will be a talk by Ralf Wanger, Founder of the synthetic biology company GeneArt, Thursday 9/13 at 1:30PM 038 Life Sciences

    For those interested in Project 1: check out the very informative webpage Michael Schatz produced on data and resources for the project. He will be available by Skype from my office on Thursday 11/15 at 1PM for those who want to talk with him.

    The CS 549 Final Exam will Be Monday 12/17 from 2:15-5:00 pm in Lt. Eng 102 (note the room change).

    The class lab tour has been cancelled -- come to class as usual on Tuesday, November 13th.

    Course Notes

    Course Documents

    Homework Assignments