MB&B 452a / 752a12, Fall 2000



Previous Year's Course Pages (all links still work)

Fall 1999, Spring 1999, Spring 1998

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 6 September 2000.
MB&B Department, Bass building, Yale University, New Haven, CT 06520


Genomics Section

Bioinformatics Section

Teaching Fellows

Weikai Li
Bass 415, Phone 203 432-5627, e-mail wl43@pantheon.yale.edu

Vadim Alexandrov
Gibbs 370, e-mail Vadim.Alexandrov@yale.edu

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]

Rough Outline of Topics

Genomics Section
 Sep 06 MG Overview of Bioinformatics [html] [pdf]
11 DS Genomics: Overview. The diversity of life (Life at 105°C, at pH 1 or in 5M KCl)
13 DS Genomics: Overview of Proteins & Nucleic Acids
18 DS Physical and genetic maps. Whole genome sequences
20 DS Whole genome sequences; annotation
25 DS Functional genomics I (array technologies & uses)
27 DS Proteomics
Oct 02 MS Functional genomics II (gene disruptions, fusions, etc)
04 MS Functional genomics II contd.
09 DS SNPs, Human Genetic Diversity, Drug Development (Uli Thomann, Genome Therapeutics)
11 DS Structural genomics. Whole genome comparisons
16 DS Agricultural genomics (Carl Simmons, Pioneer Hi-Bred)
18 DS MIDTERM EXAM (covering lectures through October 06)

Bioinformatics Section (also includes updated READING LIST)
23 MG Sequence Alignment I (via Dynamic Programming)
25 MG Sequence Alignment II
30 MG Web resources for bioinformatics
Nov 01 MG Multiple alignment and HMMs
06 MG Macromolecular Geometry I (Structural Alignment and Threading)
08 DS Genomics and Society
13 MG Bioinformatics in Society
15 MG Databases and Integrative Analysis I
27 MG Databases and Integrative Analysis II
29 MG Databases and Integrative Analysis III
Dec 04 MG Macromolecular Geometry II
06 MG Macromolecular Geometry III

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?

Quick Links (that may no longer work)

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

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