Computational Molecular Biology and Genomics - Fall 2004

[Syllabus] [Reading] [Projects] [Prerequisites] [Course work & policies] [Resources] [2003 page] [2002 page]

Course Summary

An advanced introduction to computational molecular biology, using an applied algorithms approach. The course will survey established algorithmic methods, including pairwise sequence alignment and dynamic programming, multiple sequence alignment, fast database search heuristics, hidden Markov models for molecular motifs, phylogeny reconstruction and gene finding. We will explore emerging computational problems in genomics through special topics lectures and course projects in 03-711/15-856.     Course numbers demystified.

Administrative Information

Lectures: T,Th 10:30am – 11:50am, Location: Porter Hall A21    

Professor: Dannie Durand, durand@cmu.edu, 8-6036
Office hours:     Tuesdays, 2:30pm - 3:30pm, Mellon Institute 646

Teaching Assistant: Nan Song, nsong@andrew.cmu.edu, 8-3199
Office hours:     Wednesdays, 2pm - 3pm, Doherty Hall 1321

Announcements

Final Exam:  Dec 17, 8:30am - 11:30am, Porter Hall A18C
This exam is closed book. You may use two 8.5x11 pages of your own notes. Bring a calculator.

Gene finding study questions

Finals week office hours:
Dannie Durand:   MI 650,  Tuesday, 12/14, 2:30pm - 5:30pm
Nan Song:   DH 1321,   Wednesday, 12/15, noon - 2pm




Midterm Grades

Lectures of interest (not required):

    Genetic History of Africa
    Sarah Tishkoff, University of Maryland
    Wednesday, Oct 20, 12:30 PM, Mellon Institute Conference Room

    Algorithms for Multiple Sequence Alignment of Genomes and Proteins
    Serafim Batzoglou, Stanford University
    Friday, Oct 1, 3:30 PM, NSH 1507



Last modified: October 25th, 2004.
Maintained by Dannie Durand (durand@cs.cmu.edu).