Department of Mathematics

18.418: Topics in Computational Molecular Biology

Covers current research topics in computational molecular biology. Recent research papers presented from leading conferences such as the International Conference on Computational Molecular Biology (RECOMB), the Pacific Symposium on Biocomputing (PSB), and the Intelligent Systems for Molecular Biology (ISMB). Topic areas include original research (both theoretical and experimental) in genomics, molecular sequence analysis, recognition of genes and regulatory elements, molecular evolution, protein, and RNA structure, and combinatorial libraries for drug design. Recent research by course participants also covered.


Attendance is mandatory and it will be taken at each meeting and count toward your overall grade. Participation will also factor into your grade.

The class meeting on Wednesdays will be guest lecturers who will present various research topics. Information concerning the series can be found at the seminar's web page:

The class meeting on Mondays will be either group or individual (depending upon enrollment) projects by student seminar members. A copy of the powerpoint presentation or your notes (typed preferred) with bibliography will be due the day of your talk.

There is not a final for this class.

The class will not meet the following days: Feb 15, Mar 23, and Mar 25.

Prerequisites: 18.417, 6.085, 6.8745 or permission of instructor.

Please note that only graduate students may repeat the class for credit; undergrads (Juniors and Seniors) are welcomed to take the class once for credit & encouraged to sit in as listeners if they wish to repeat the class. Freshmen and Sophomores are welcome as listeners only & only with permission of the instructor.

Please note that this page and the information on it are subject to change.

Time & Location

Class Meeting Time: Monday & Wednesday 11:30 - 1:00. We meet in two different classrooms. On Mondays, the class is in 2-132, and on Wednesdays, it is in 32-G575 (Gates Tower of the Stata Center) May 4, May 11 and May 24th seminars will be held in the Stata Center Building 32 Room G575.

Office Hours for Professor Berger: 10:30-11:30am, Wednesdays (CSAIL office, 32G-574) or by appointment.


Date Lecture
Feb  3 Course Intro/Guest Lecturer Bonnie Berger/James Zou, Microsoft Research
Feb  8 Class Discussion Student Presentations
Feb 10 Guest Lecturer Caroline Uhler, MIT
Feb 15 President's Day No Meeting
Feb 17 Guest Lecturer

Po-Ru Loh Harvard School of Public Health

Feb 22 Class Discussion Student Presentations
Feb 24 Guest Lecturer Sean Simmons
Feb  29 Class Discussion Student Presentations
Mar  2 Guest Lecturer Nicolo Fusi
Mar  7 Class Discussion Student Presentations
Mar 9 Guest Lecturer Michael Baym
Mar 14 Class Discussion Student Presentations
Mar 16 Guest Lecturer Curtis Huttenhower
Mar 21  Spring Break No Meeting
Mar 28 Class Discussion Student Presentations
Mar  30 Guest Lecturer Cancelled
Apr   4 Class Discussion Student Presentations
Apr   6 Guest Lecturer Ben Hescott
Apr 11 Class Discussion Student Presentations
Apr 13 Guest Lecturer Rafael Irizarry
Apr 18 Patriots Day No Meeting
Apr 20 Guest Lecturer Lenore Cowen
Apr 25 Class Discussion Student Presentations
Apr 27 Guest Lecturer Yaniv Erlich
May  2 Class Discussion Student Presentations
May  4 Guest Lecturer Brad Malin
May 9 Class Discussion Student Presentations
May 11 Guest Lecturer Jeremy Gunawardena
May 24    Guest Lecturer                      Luay Nakhleh    

Instructor: Bonnie Berger, Assistant: Patrice Macaluso
Contact Information: bab at mit dot edu, x3-1827, 32-G574, 2-373.
Contact Information: macaluso at mit dot edu, x3-3037, 32-G568.

Please contact Professor Berger via email directly for further information concerning this class.

Site last updated 2 February, 2013 16:48

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