projects_p597

projects_p597 - PHYS 597A: Graphs and networks in systems...

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Unformatted text preview: PHYS 597A: 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, you will give an in-class presentation on your projects during the last two weeks of the semester, and write a paper due on the Monday after classes end. Two types of papers are envisioned (i) 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 protein-protein interaction networks and analyzing their properties, a review of dynamic modeling of biological networks etc. (ii) An original project that is related to networks and to your research field. For example, it could be the construction of an interaction network for a biological process or social organization, analysis of its properties and/or modeling of its dynamics. Or, it could be a new network model or method, or one that combines previous ideas in a novel way. 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 find 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.chem-eng.northwestern.edu/ S. N. Dorogovtsev, J. F. F. Mendes, Phys. Rev. E 62, 1842 http://sweet.ua.pt/ ~ f2064/ 1 •...
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projects_p597 - PHYS 597A: Graphs and networks in systems...

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