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Systems Biology and Regulatory Genomics: Joint Annual RECOMB by Weihui Wu, Yongling Song, Shouguang Jin (auth.), Eleazar

By Weihui Wu, Yongling Song, Shouguang Jin (auth.), Eleazar Eskin, Trey Ideker, Ben Raphael, Christopher Workman (eds.)

This publication constitutes the completely refereed post-proceedings of 2 joint RECOMB 2005 satellite tv for pc occasions: the 1st Annual Workshop on platforms Biology, RSB 2005 and the second one Annual Workshop on Regulatory Genomics, RRG 2005, held in San Diego, CA, united states in December 2005.

The 21 revised complete papers provided have been conscientiously reviewed and chosen for inclusion within the publication. The papers handle a large number of subject matters in platforms biology and regulatory genomics together with inference of gene regulatory and protein signaling networks, version prediction of drug mechanism, pathway mapping and evolution in protein interplay networks, multi-scale tools which bridge summary and precise types, systematic layout of genome-scale experiments, modeling and popularity of regulatory parts, id and modeling of cis-regulatory areas, modeling the constitution and serve as of the regulatory sector, and comparative genomics of regulation.

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Additional resources for Systems Biology and Regulatory Genomics: Joint Annual RECOMB 2005 Satellite Workshops on Systems Biology and on Regulatory Genomics, San Diego, CA, USA; December 2-4, 2005, Revised Selected Papers

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W. Rives and T. Galitski. Modular organization of cellular networks. Proceedings of the National Academy of Sciences USA, 100:1128–1133, 2003. 20. R. Shamir. Advanced topics in graph theory. Technical report, Tel-Aviv University, 1994. 21. V. A. Mirny. Protein complexes and functional modules in molecular networks. Proceedings of the National Academy of Sciences USA, 100:12123–12128, 2003. 22. S. Tornow and H. W. Mewes. Functional modules by relating protein interaction networks and gene expression.

MKK1 and MKK2, which encode Saccharomyces cerevisiae mitogen-activated protein kinase-kinase homologs, function in the pathway mediated by protein kinase C. Molecular Cell Biology, 13:3076–3083, 1993. 15. T. Ito, T. Chiba, R. Ozawa, M. Yoshida, M. Hattori, and Y. Sakaki. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proceedings of the National Academy of Sciences USA, 98:4569–4574, 2001. 16. W. Mewes, D. Frishman, U. Guldener, G. Mannhaupt, K. Mayer, M. Mokrejs, B.

Fig. 2. (a) A hypothetical protein interaction network. (b) A list of all maximal cliques in the network. (c) A naive representation of overlaps between maximal cliques. Each maximal clique is a node and there is an edge between two maximal cliques if and only if they share a protein. (d) The clique tree representation. Once again, every maximal clique is a node, but the cliques are connected in such a way that the resulting graph is a tree. Moreover, cliques that contain a given protein form a connected subgraph.

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