MB&B 452a / 752a12, Fall 1999



Quick Links

Bioinformatics Module, Survey, "Demographics", Projects, Intro. lecture [html] [pdf], Sequences lectures [html] [pdf], Databases lectures [html] [pdf], Structures lectures [html] [pdf], Simulation lectures [html] [pdf]

Brief Description

Genomics describes the determination of the nucleotide sequence as well as many further analyses used to discover functional and structural gene information on all the genes of an organism. Topics include the methods and results of analysis on a genome-wide scale as well as a discussion of the implications of this research. Bioinformatics describes the computational analysis of gene sequences and protein structures on a large scale. Topics include sequence alignment, biological database design, geometric analysis of protein structure, and macromolecular simulation. [Blue Book Entry]

This course can either be taken as an integrated semester-long course (452a) or as separate modules in genomics (752a1) and bioinformatics (752a2, starting 18 October).

Timing and Location

Meeting from 1:00-2:15 PM on Mondays and Wednesday, in Bass 305.
First meeting: Bass 305, 1:00-2:15 PM, Wednesday 1 September 1999.
MB&B Department, Bass building, Yale University, New Haven, CT 06520


Genomics Module, 752a1

Bioinformatics Module, 752a2

Class Handouts and Other Documents

Material for the bioinformatics module, including on-line lectures, readings, assignments, and survey will be at

Course e-mail list at class@bioinfo.mbb.yale.edu with Hypertext archive of course messages

The bioinformatics module will follow a very similar progression to the course offered last spring.
(See, in particular, http://bioinfo.mbb.yale.edu/course/classes.)

Also, see other related on-line lectures.

Rough Outline of Topics

Genomics Module
 Sep  01 DS The diversity of life (Life at 105°C or at pH 1 or at 5M KCI)
06 DS Overview of Proteins & Nucleic Acids
08 DS Physical and genetic maps; whole genome sequences
13 DS Tools of bioinformatics for genomics
15 DS Functional genomics I (array technologies & uses)
20 MS Functional genomics II (gene disruptions, fusions)
22 DS Proteomics
27 DS Structural genomics
29 DS Genome comparisons
Oct 04 DS Genomics: an industrial perspective (Carl Simmons, Pioneer Hi-Bred)
06 DS Genomics: a scientific and user's perspective
08 DS Genomics: a societal perspective (Madeline Baer, SkaddenArps)
13 DS MIDTERM EXAM (covering lectures through October 06)

Bioinformatics Module
18 MG What is Bioinformatics?
20 MG Sequence Alignment I (via Dynamic Programming)
25 MG Sequence Alignment II
27 MG Sequence Alignment III (Scoring Schemes)
Nov 01 MG Sequence Alignment IV
03 MG Macromolecular Geometry I (Structural Alignment & Threading)
08 MG Macromolecular Geometry II (Surfaces & Volumes)
10 MG Databases I
15 MG Databases II
17 MG Databases III (Trees, multiple alignment)
29 MG Macromolecular Geometry III (Docking, simulation)
Dec 01 MG Summary (societal and industrial perspectives)

Work Required and Grading


Research Jobs in Bioinformatics

If you're really motivated, take a look at http://bioinfo.mbb.yale.edu/jobs.


The DNA-mouse image is adapted from the GCB-98 homepage. What's wrong with the adaptation?