Tel Aviv University School of Computer Science

Spring 2005
Analysis of DNA Chips and Gene Networks

0368-4137-01

http://www.cs.tau.ac.il/~rshamir/ge/05/

Ron Shamir

Thursdays 16-19 Schreiber 006

Contact Info:


		Email	Phone	Office	Office Hours
Instructor:	Ron Shamir	rshamir	640-5383	Schreiber 014	By appointment
TA:	Irit Gat-Viks	iritg	640-5394	Schreiber 011	By appointment

Mailing List

Course Description

Lecture notes:

A complete set of lecture notes are avalilable for the 2002 and 2004 courses.

Revised lecture notes will gradually appear in this website.
Course Plan:

Lect Date Topic Notes Speaker Scribe

1 24/2 Introductory Concepts pdf Ron Shamir Karin Inbar and Anat Lev-Goldstein

2 3/3 Clustering 1 pdf Ron Shamir Seagull Chalamish and Itamar Elem
3 11/3
Friday 9:00
Hotzblat (physics 7) Low level gene expression analysis pdf Rani Elkon Amos Moseri and Eitan Hirsh

4 17/3 Clustering 2, Biclustering 1 pdf Ron Shamir David Shafrir

5 24/3 Biclustering 2 pdf Amos Tanay Seagull Chalamish and Itamar Elem

6 31/3 Classification pdf Gideon Dror , Ron Shamir Daniela Raijman and Igor Ulitsky

7 7/4 Promoter Analysis pdf Chaim Linhart, Ron Shamir Amos Moseri, Eitan Hirsh and Ziv Bronstein

8 14/4 Bayesian Networks pdf Irit Gat-Viks Uri Avni and Potikha Liza

9 5/5 Genetic Networks 1 pdf Ron Shamir Karin Inbar, Anat Lev-Goldstein and Ziv Bronstein

10 19/5 Protein Interaction networks pdf Roded sharan Daniela Raijman and Igor Ulitsky

11 2/6 Genetic Networks 2 pdf Ron Shamir Uri Avni and Potikha Liza

Course Material and Handouts

Lect	Date	Topic	Notes	Speaker	Scribe
1	24/2	Introductory Concepts	pdf	Ron Shamir	Karin Inbar and Anat Lev-Goldstein
2	3/3	Clustering 1	pdf	Ron Shamir	Seagull Chalamish and Itamar Elem
3	11/3 Friday 9:00 Hotzblat (physics 7)	Low level gene expression analysis	pdf	Rani Elkon	Amos Moseri and Eitan Hirsh
4	17/3	Clustering 2, Biclustering 1	pdf	Ron Shamir	David Shafrir
5	24/3	Biclustering 2	pdf	Amos Tanay	Seagull Chalamish and Itamar Elem
6	31/3	Classification	pdf	Gideon Dror , Ron Shamir	Daniela Raijman and Igor Ulitsky
7	7/4	Promoter Analysis	pdf	Chaim Linhart, Ron Shamir	Amos Moseri, Eitan Hirsh and Ziv Bronstein
8	14/4	Bayesian Networks	pdf	Irit Gat-Viks	Uri Avni and Potikha Liza
9	5/5	Genetic Networks 1	pdf	Ron Shamir	Karin Inbar, Anat Lev-Goldstein and Ziv Bronstein
10	19/5	Protein Interaction networks	pdf	Roded sharan	Daniela Raijman and Igor Ulitsky
11	2/6	Genetic Networks 2	pdf	Ron Shamir	Uri Avni and Potikha Liza

Course requirements

Bibliography: textbooks, background and more.

Scribe instructions

"Clustering Gene Expression Patterns", by A. Ben-Dor, R. Shamir, Z. Yakhini (The article describing the PCC model and analysis).

Slides of Rani Elkon's lecture: Low Level Analysis

Useful Links

archive of the course Algorithms in Molecular Biology , including detailed lecture notes .

links to related courses given worldwide.

rshamir AT tau.ac.il

Spring 2005 Analysis of DNA Chips and Gene Networks

http://www.cs.tau.ac.il/~rshamir/ge/05/

Ron Shamir

Thursdays 16-19 Schreiber 006

Course Material and Handouts

Useful Links

Spring 2005
Analysis of DNA Chips and Gene Networks