Summary: PHYS 597A: Graphs and networks in systems biology
Project assignment 1, due Tuesday March 18
It is now time to decide on 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.
Three types of papers are envisioned
(i) A comprehensive and critical review of the literature on a network-
related topic. For example, a review of search problems in networks, a re-
view of constructing protein-protein interaction networks and analyzing their
properties, a review of dynamic modeling of biological networks etc.
(ii) The development of a new network model or method that either
combines previous ideas in a novel way or proposes new ideas for network
modeling. The model will be analyzed with the methods learned in class and
compared to other models.
(iii) An original project that is related to networks. It can be based
on your thesis research. For example, it could be the construction of an
interaction network for a biological process or social organization, analysis of
its properties and comparison to other biological/social networks.
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)