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CMPSC 497E: Graphs and networks in systems biology
Project assignment 1, due Tuesday Oct. 20
It is now time to decide your term project topics. As a reminder, your will
write a term paper due on the Monday after classes end. Your term paper
should be a comprehensive and critical review of the literature on a network
related topic. Examples include a review of search problems in networks, a
review of constructing metabolic networks and analyzing their properties, a
review of dynamic modeling of biological networks etc.
The goal of this assignment is to help you select your research topic. A
list of topics is given below. For each topic several leads (papers, websites)
are given, follow them to ±nd other relevant references. Choose a topic from
these, or propose your own. If you have a hard time deciding, feel free to
consult me by email.
Write a short motivation for your proposed work, including a list of ref
erences.
Suggested project topics
1. Select one from the following types of network models
•
modeling growth/capacity constraints
L. A. N. Amaral, A. Scala, M. Barth´
el´
emy and H. E. Stanley,
PNAS 97, 11149 (2000)
http://amaral.chemeng.northwestern.edu/
S. N. Dorogovtsev, J. F. F. Mendes, Phys. Rev. E 62, 1842
http://sweet.ua.pt/
~
f2064/
•
competition in evolving networks
G. Bianconi, A.L. Barab´asi, Europhys. Lett. 54, 436
http://www.nd.edu/
~
networks
•
optimization principles
S. S. Manna, A. Kabakcioglu,
Scalefree Network on Euclidean
Space Optimized by Rewiring of Links
. Phys. A, 36, L279 (2003)
1
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View Full DocumentV Colizza, JR Banavar, A Maritan, A Rinaldo,
Network Structures
from Selection Principles
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 Fall '09
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