Instructors: Martin
Kupiec, Eytan Ruppin and Roded Sharan
Office hours: by appointment.
Following is a tentative outline of the course, which will be updated according to what is actually studied in class:
|
Week |
Date |
Lecture & handouts |
Read more |
|
1 |
24 Jan |
Overview & Introduction to Biology |
Molecular biology of the cell, Alberts et al.; summary |
|
2 |
31 Jan |
Networks: properties and random models; Cluster
analysis |
Tutorials & Newman'01; summary1-properties; summary2-models; summary3-clustering |
|
3 |
7 Feb |
Old vs. new biology; Experimental
techniques |
|
|
4 |
14 Feb |
---- |
|
|
5 |
21
Feb |
Large-scale
experimental techniques |
|
|
6 |
28
Feb |
Networks:
module identification |
|
|
7 |
6
Mar |
Back to biology: SAMBA and SIMBA |
|
|
8 |
13 Mar |
Stochiometric modeling of Metabolism |
|
|
9 |
20 Mar |
Genetic
interactions |
|
|
10 |
27 Mar |
Probabilistic graphical inference of expression and
regulation |
Bibliography and Notes
A recommended book on introduction to biology is 'Molecular Biology of the Cell' by Alberts et al.
Reviews/tutorials on Biological Networks
1. N. Pruzlj et al. Graph theory analysis of protein-protein interactions. In "Knowledge discovery in proteomics", edited by Igor Jurisica and Dennis Wigle, CRC Press, 2005.
2. A.-L. Barabsi and Z.N. Oltvai. Network biology: understanding the cell's functional organization. Nat. Rev. Genet. 5:101-113, 2004.
3. M.E.J. Newman. The
structure and function of complex networks.
4. R. Albert and A.-L. Barabasi. Statistical mechanics of complex networks. Rev. Modern Phys. 74:47-97, 2002.